HEADER HYDROLASE 27-APR-09 3H7K TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS THALIANA AGMATINE DEIMINASE COMPLEXED TITLE 2 WITH A COVALENTLY BOUND REACTION INTERMEDIATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AGMATINE DEIMINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AGMATINE IMINOHYDROLASE, PROTEIN EMBRYO DEFECTIVE 1873; COMPND 5 EC: 3.5.3.12; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS,THALE-CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 STRAIN: COLUMBIA; SOURCE 6 GENE: AIH, AT5G08170, EMB1873, T22D6.110; SOURCE 7 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PEU-HIS-FLEXI; SOURCE 10 OTHER_DETAILS: WHEAT GERM KEYWDS AGMATINE, STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 2 CENTER FOR EUKARYOTIC STRUCTURAL GENOMICS, CESG, N- KEYWDS 3 CARBAMOYLPUTRESCINE, ARGININE DECARBOXYLASE PATHWAY, HYDROLASE, KEYWDS 4 POLYAMINE BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR E.S.BURGIE,C.A.BINGMAN,G.N.PHILLIPS JR.,CENTER FOR EUKARYOTIC AUTHOR 2 STRUCTURAL GENOMICS (CESG) REVDAT 4 01-NOV-17 3H7K 1 REMARK REVDAT 3 17-AUG-11 3H7K 1 MODRES REVDAT 2 10-AUG-11 3H7K 1 MODRES VERSN REVDAT 1 26-MAY-09 3H7K 0 JRNL AUTH E.S.BURGIE,C.A.BINGMAN,G.N.PHILLIPS JR. JRNL TITL STRUCTURAL INSIGHTS INTO THE CATALYTIC MECHANISM OF JRNL TITL 2 ARABIDOPSIS THALIANA AGMATINE DEIMINASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.84 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REFMAC_5.5.0066 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 37094 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1849 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) : 1.84 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.89 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2517 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.95 REMARK 3 BIN R VALUE (WORKING SET) : 0.1740 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.2020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2921 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 253 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : 0.44000 REMARK 3 B33 (A**2) : -0.17000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.25000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.106 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.796 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3102 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4223 ; 1.361 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 387 ; 6.800 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 155 ;36.515 ;24.129 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 502 ;13.544 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;18.529 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 444 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2449 ; 0.016 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1897 ; 1.559 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3076 ; 2.426 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1205 ; 3.869 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1147 ; 6.119 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3H7K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000052791. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.97942 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37121 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.840 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.09400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.0280 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.30500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.647 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP, SOLOMON REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION 100 NL- 10 MG/ML REMARK 280 AGMATINE DEIMINASE, 50 MM NACL, 0.3 MM TCEP, 10 MM AGMATINE REMARK 280 SULFATE, 5 MM HEPES, PH 7.0; PRECIPITANT SOLUTION 100 NL- 32% REMARK 280 POLYETHYLENE GLYCOL 1500, 200 MM KBR, 100 MM TRIETHANOLAMINE, PH REMARK 280 7.5; CRYOPROTECTANT- MITEGEN LV CRYO OIL, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 61.86000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.78000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 61.86000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.78000 REMARK 290 SMTRY3 4 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT. 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 526 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 588 LIES ON A SPECIAL POSITION. 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 104 REMARK 465 PRO A 105 REMARK 465 VAL A 106 REMARK 465 LYS A 107 REMARK 465 LEU A 108 REMARK 465 SER A 109 REMARK 465 SER A 110 REMARK 465 LEU A 111 REMARK 465 ASN A 112 REMARK 465 SER A 377 REMARK 465 VAL A 378 REMARK 465 ALA A 379 REMARK 465 GLU A 380 REMARK 465 ASN A 381 REMARK 465 GLY A 382 REMARK 465 HIS A 383 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 GLU A 31 -32.35 -157.98 REMARK 500 SER A 90 55.16 -117.66 REMARK 500 ASN A 123 33.03 -146.28 REMARK 500 ASP A 130 14.29 -152.08 REMARK 500 ARG A 186 -82.04 -112.09 REMARK 500 ASP A 218 58.37 -90.47 REMARK 500 MSE A 228 -53.53 -122.43 REMARK 500 ASN A 318 98.81 -60.55 REMARK 500 ASN A 363 -158.74 -151.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 1PE A 391 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 MG A 384 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 119 OD1 REMARK 620 2 TRP A 120 O 92.3 REMARK 620 3 HOH A 528 O 103.0 88.7 REMARK 620 4 HOH A 508 O 102.5 155.7 106.3 REMARK 620 5 HOH A 531 O 81.5 80.4 168.4 82.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 385 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TRP A 125 O REMARK 620 2 ASP A 130 O 76.4 REMARK 620 3 ASP A 220 O 85.5 133.2 REMARK 620 4 ASN A 222 OD1 83.9 121.3 98.6 REMARK 620 5 HOH A 513 O 140.1 78.5 133.9 83.2 REMARK 620 6 HOH A 558 O 114.4 70.3 79.1 161.1 85.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 387 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 217 O REMARK 620 2 ARG A 306 O 107.9 REMARK 620 3 HOH A 452 O 96.4 99.2 REMARK 620 4 HOH A 593 O 90.4 101.9 154.7 REMARK 620 5 THR A 305 OG1 169.1 82.7 84.5 84.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 386 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 1PE A 391 OH4 REMARK 620 2 1PE A 391 OH3 60.2 REMARK 620 3 1PE A 391 OH6 115.6 109.5 REMARK 620 4 1PE A 391 OH5 61.4 109.4 66.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 384 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 385 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 386 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 387 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 388 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 389 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 390 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1PE A 391 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.24674 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THE SEQUENCE MATCHES GENBANK ENTRY AAO63405.1. REMARK 999 THE DISCREPANCY BETWEEN AUTHOR'S SEQUENCE AND THE SEQUENCE LISTED REMARK 999 IN UNIPROT IS A KNOWN "SEQUENCE CONFLICT". THIS IS DOCUMENTED ON REMARK 999 THE UNIPROT WEBSITE AT HTTP://WWW.UNIPROT.ORG/UNIPROT/Q8GWW7. AT REMARK 999 THE WEBSITE TWO INDEPENDENT REFERENCES ARE PROVIDED. FURTHERMORE, REMARK 999 AUTHOR'S ELECTRON DENSITY SHOWS NO SIGN OF ASPARTATE AT THIS REMARK 999 POSITION. THIS SEQUENCE IS LIKELY JUST A NATURAL VARIATION, AND WAS REMARK 999 NOT PRODUCED BY SITE-DIRECTED MUTAGENSIS. DBREF 3H7K A 2 383 UNP Q8GWW7 AGUA_ARATH 2 383 SEQADV 3H7K SER A 1 UNP Q8GWW7 EXPRESSION TAG SEQADV 3H7K GLY A 49 UNP Q8GWW7 ASP 49 SEE REMARK 999 SEQRES 1 A 383 SER GLU GLU SER ARG GLU SER PRO ALA GLU HIS GLY TYR SEQRES 2 A 383 TYR MSE PRO ALA GLU TRP ASP SER HIS ALA GLN THR TRP SEQRES 3 A 383 ILE GLY TRP PRO GLU ARG GLN ASP ASN TRP ARG HIS ASN SEQRES 4 A 383 ALA LEU PRO ALA GLN ARG VAL PHE ALA GLY VAL ALA LYS SEQRES 5 A 383 ALA ILE SER LYS PHE GLU PRO VAL THR VAL CYS ALA SER SEQRES 6 A 383 PRO ALA GLN TRP GLU ASN ALA ARG LYS GLN LEU PRO GLU SEQRES 7 A 383 ASP ILE ARG VAL VAL GLU MSE SER MSE ASN ASP SER TRP SEQRES 8 A 383 PHE ARG ASP SER GLY PRO THR PHE ILE VAL ARG LYS ARG SEQRES 9 A 383 PRO VAL LYS LEU SER SER LEU ASN ARG ASN ILE ALA GLY SEQRES 10 A 383 ILE ASP TRP ASN PHE ASN ALA TRP GLY GLY ALA ASN ASP SEQRES 11 A 383 GLY CYS TYR ASN ASP TRP SER HIS ASP LEU LEU VAL SER SEQRES 12 A 383 ARG LYS ILE LEU ALA LEU GLU ARG ILE PRO ARG PHE GLN SEQRES 13 A 383 HIS SER MSE ILE LEU GLU GLY GLY SER ILE HIS VAL ASP SEQRES 14 A 383 GLY GLU GLY THR CYS LEU VAL THR GLU GLU CYS LEU LEU SEQRES 15 A 383 ASN LYS ASN ARG ASN PRO HIS MSE SER LYS GLU GLN ILE SEQRES 16 A 383 GLU GLU GLU LEU LYS LYS TYR LEU GLY VAL GLN SER PHE SEQRES 17 A 383 ILE TRP LEU PRO ARG GLY LEU TYR GLY ASP GLU ASP THR SEQRES 18 A 383 ASN GLY HIS ILE ASP ASN MSE CYS CYS PHE ALA ARG PRO SEQRES 19 A 383 GLY VAL VAL LEU LEU SER TRP THR ASP ASP GLU THR ASP SEQRES 20 A 383 PRO GLN TYR GLU ARG SER VAL GLU ALA LEU SER VAL LEU SEQRES 21 A 383 SER ASN SER ILE ASP ALA ARG GLY ARG LYS ILE GLN VAL SEQRES 22 A 383 ILE LYS LEU TYR ILE PRO GLU PRO LEU TYR MSE THR GLU SEQRES 23 A 383 GLU GLU SER SER GLY ILE THR GLN ASP GLY GLU ALA ILE SEQRES 24 A 383 PRO ARG LEU ALA GLY THR ARG LEU ALA ALA SER TYR VAL SEQRES 25 A 383 ASN PHE TYR ILE ALA ASN GLY GLY ILE ILE ALA PRO GLN SEQRES 26 A 383 PHE GLY ASP PRO ILE ARG ASP LYS GLU ALA ILE ARG VAL SEQRES 27 A 383 LEU SER ASP THR PHE PRO HIS HIS SER VAL VAL GLY ILE SEQRES 28 A 383 GLU ASN ALA ARG GLU ILE VAL LEU ALA GLY GLY ASN ILE SEQRES 29 A 383 HIS AGT ILE THR GLN GLN GLN PRO ALA GLU PRO THR SER SEQRES 30 A 383 VAL ALA GLU ASN GLY HIS MODRES 3H7K MSE A 15 MET SELENOMETHIONINE MODRES 3H7K MSE A 85 MET SELENOMETHIONINE MODRES 3H7K MSE A 87 MET SELENOMETHIONINE MODRES 3H7K MSE A 159 MET SELENOMETHIONINE MODRES 3H7K MSE A 190 MET SELENOMETHIONINE MODRES 3H7K MSE A 228 MET SELENOMETHIONINE MODRES 3H7K MSE A 284 MET SELENOMETHIONINE MODRES 3H7K AGT A 366 CYS HET MSE A 15 8 HET MSE A 85 8 HET MSE A 87 8 HET MSE A 159 8 HET MSE A 190 8 HET MSE A 228 8 HET MSE A 284 8 HET AGT A 366 14 HET MG A 384 1 HET NA A 385 1 HET NA A 386 1 HET NA A 387 1 HET CL A 388 1 HET CL A 389 1 HET CL A 390 1 HET 1PE A 391 13 HETNAM MSE SELENOMETHIONINE HETNAM AGT S-{(S)-AMINO[(4-AMINOBUTYL)AMINO]METHYL}-L-CYSTEINE HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM 1PE PENTAETHYLENE GLYCOL HETSYN 1PE PEG400 FORMUL 1 MSE 7(C5 H11 N O2 SE) FORMUL 1 AGT C8 H20 N4 O2 S FORMUL 2 MG MG 2+ FORMUL 3 NA 3(NA 1+) FORMUL 6 CL 3(CL 1-) FORMUL 9 1PE C10 H22 O6 FORMUL 10 HOH *253(H2 O) HELIX 1 1 SER A 7 GLY A 12 5 6 HELIX 2 2 ARG A 37 ASN A 39 5 3 HELIX 3 3 ALA A 40 LYS A 56 1 17 HELIX 4 4 SER A 65 ALA A 67 5 3 HELIX 5 5 GLN A 68 LEU A 76 1 9 HELIX 6 6 TRP A 91 GLY A 96 1 6 HELIX 7 7 GLY A 126 GLY A 131 1 6 HELIX 8 8 HIS A 138 LEU A 140 5 3 HELIX 9 9 LEU A 141 ARG A 151 1 11 HELIX 10 10 GLU A 162 GLY A 164 5 3 HELIX 11 11 GLU A 178 LEU A 182 1 5 HELIX 12 12 SER A 191 GLY A 204 1 14 HELIX 13 13 HIS A 224 ASN A 227 5 4 HELIX 14 14 ASP A 247 SER A 261 1 15 HELIX 15 15 THR A 285 GLY A 291 1 7 HELIX 16 16 ILE A 330 PHE A 343 1 14 HELIX 17 17 ALA A 354 LEU A 359 1 6 HELIX 18 18 ILE A 364 AGT A 366 5 3 SHEET 1 A 4 ARG A 81 GLU A 84 0 SHEET 2 A 4 VAL A 60 ALA A 64 1 N VAL A 62 O ARG A 81 SHEET 3 A 4 HIS A 22 ILE A 27 1 N ILE A 27 O CYS A 63 SHEET 4 A 4 THR A 368 PRO A 372 -1 O GLN A 371 N ALA A 23 SHEET 1 B 3 THR A 98 VAL A 101 0 SHEET 2 B 3 ILE A 115 ASN A 121 -1 O ALA A 116 N ILE A 100 SHEET 3 B 3 ARG A 154 ILE A 160 1 O PHE A 155 N ASP A 119 SHEET 1 C 3 ILE A 166 VAL A 168 0 SHEET 2 C 3 THR A 173 THR A 177 -1 O LEU A 175 N HIS A 167 SHEET 3 C 3 SER A 207 LEU A 211 1 O ILE A 209 N CYS A 174 SHEET 1 D 3 CYS A 229 ARG A 233 0 SHEET 2 D 3 VAL A 236 TRP A 241 -1 O LEU A 238 N CYS A 230 SHEET 3 D 3 GLN A 272 TYR A 277 1 O ILE A 274 N LEU A 239 SHEET 1 E 3 TYR A 315 ALA A 317 0 SHEET 2 E 3 GLY A 320 PRO A 324 -1 O ILE A 322 N TYR A 315 SHEET 3 E 3 SER A 347 ILE A 351 1 O VAL A 349 N ILE A 321 LINK C TYR A 14 N MSE A 15 1555 1555 1.32 LINK C MSE A 15 N PRO A 16 1555 1555 1.35 LINK C GLU A 84 N MSE A 85 1555 1555 1.33 LINK C MSE A 85 N SER A 86 1555 1555 1.33 LINK C SER A 86 N MSE A 87 1555 1555 1.32 LINK C MSE A 87 N ASN A 88 1555 1555 1.33 LINK C SER A 158 N MSE A 159 1555 1555 1.32 LINK C MSE A 159 N AILE A 160 1555 1555 1.33 LINK C MSE A 159 N BILE A 160 1555 1555 1.33 LINK C HIS A 189 N MSE A 190 1555 1555 1.34 LINK C MSE A 190 N SER A 191 1555 1555 1.33 LINK C ASN A 227 N MSE A 228 1555 1555 1.34 LINK C MSE A 228 N CYS A 229 1555 1555 1.33 LINK C TYR A 283 N MSE A 284 1555 1555 1.33 LINK C MSE A 284 N THR A 285 1555 1555 1.33 LINK C HIS A 365 N AGT A 366 1555 1555 1.30 LINK C AGT A 366 N ILE A 367 1555 1555 1.38 LINK OD1 ASP A 119 MG MG A 384 1555 1555 2.25 LINK O TRP A 120 MG MG A 384 1555 1555 2.37 LINK O TRP A 125 NA NA A 385 1555 1555 2.62 LINK O ASP A 130 NA NA A 385 1555 1555 2.84 LINK O GLY A 217 NA NA A 387 1555 1555 2.70 LINK O ASP A 220 NA NA A 385 1555 1555 2.76 LINK OD1 ASN A 222 NA NA A 385 1555 1555 2.93 LINK O ARG A 306 NA NA A 387 1555 1555 2.46 LINK MG MG A 384 O HOH A 528 1555 1555 2.38 LINK MG MG A 384 O HOH A 508 1555 1555 2.45 LINK NA NA A 385 O HOH A 513 1555 1555 2.88 LINK NA NA A 385 O HOH A 558 1555 1555 2.94 LINK NA NA A 386 OH4 1PE A 391 1555 1555 2.80 LINK NA NA A 386 OH3 1PE A 391 1555 1555 2.78 LINK NA NA A 386 OH6 1PE A 391 1555 1555 2.84 LINK NA NA A 386 OH5 1PE A 391 1555 1555 2.50 LINK NA NA A 387 O HOH A 452 1555 1555 2.18 LINK NA NA A 387 O HOH A 593 1555 1555 2.52 LINK MG MG A 384 O HOH A 531 1555 1555 2.61 LINK OG1BTHR A 305 NA NA A 387 1555 1555 3.02 SITE 1 AC1 6 ASP A 119 TRP A 120 SER A 143 HOH A 508 SITE 2 AC1 6 HOH A 528 HOH A 531 SITE 1 AC2 7 TRP A 125 ASP A 130 GLU A 219 ASP A 220 SITE 2 AC2 7 ASN A 222 HOH A 513 HOH A 558 SITE 1 AC3 1 1PE A 391 SITE 1 AC4 5 GLY A 217 THR A 305 ARG A 306 HOH A 452 SITE 2 AC4 5 HOH A 593 SITE 1 AC5 5 LYS A 270 PRO A 300 LEU A 302 THR A 305 SITE 2 AC5 5 HOH A 495 SITE 1 AC6 1 ARG A 269 SITE 1 AC7 2 LYS A 52 GLY A 350 SITE 1 AC8 5 ASP A 265 TYR A 283 MSE A 284 GLU A 286 SITE 2 AC8 5 NA A 386 CRYST1 123.720 69.560 50.986 90.00 98.52 90.00 C 1 2 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 0.008083 0.000000 0.001210 0.00000 SCALE2 0.000000 0.014376 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019832 0.00000