HEADER LYASE 15-SEP-11 3TU2 OBSLTE 24-OCT-12 3TU2 4HCL TITLE CRYSTAL STRUCTURE OF GLUCARATE DEHYDRATASE FROM AGROBACTERIUM TITLE 2 TUMEFACIENS COMPLEXED WITH MAGNESIUM AND L-LYXAROHYDROXAMATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCARATE DEHYDRATASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGROBACTERIUM TUMEFACIENS; SOURCE 3 ORGANISM_TAXID: 358; SOURCE 4 GENE: AGR_L_2751, ATU3453; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENOLASE FOLD, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR A.A.FEDOROV,E.V.FEDOROV,A.SAKAI,J.A.GERLT,S.C.ALMO REVDAT 2 24-OCT-12 3TU2 1 OBSLTE REVDAT 1 19-SEP-12 3TU2 0 JRNL AUTH A.A.FEDOROV,E.V.FEDOROV,A.SAKAI,J.A.GERLT,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF GLUCARATE DEHYDRATASE FROM JRNL TITL 2 AGROBACTERIUM TUMEFACIENS COMPLEXED WITH MAGNESIUM AND JRNL TITL 3 L-LYXAROHYDROXAMATE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.40 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 3 NUMBER OF REFLECTIONS : 80784 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.220 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 4056 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 37.4052 - 5.5245 0.99 2805 152 0.1621 0.1880 REMARK 3 2 5.5245 - 4.3871 0.99 2792 128 0.1372 0.1577 REMARK 3 3 4.3871 - 3.8332 0.98 2702 157 0.1308 0.1438 REMARK 3 4 3.8332 - 3.4830 0.98 2717 160 0.1458 0.1740 REMARK 3 5 3.4830 - 3.2335 0.99 2770 147 0.1637 0.1788 REMARK 3 6 3.2335 - 3.0430 0.99 2744 152 0.1952 0.2358 REMARK 3 7 3.0430 - 2.8906 0.98 2702 137 0.2096 0.2010 REMARK 3 8 2.8906 - 2.7648 0.98 2764 112 0.2152 0.2307 REMARK 3 9 2.7648 - 2.6584 0.98 2680 162 0.2276 0.2673 REMARK 3 10 2.6584 - 2.5667 0.98 2702 148 0.2320 0.3112 REMARK 3 11 2.5667 - 2.4865 0.98 2725 144 0.2212 0.2515 REMARK 3 12 2.4865 - 2.4154 0.99 2729 148 0.2294 0.2899 REMARK 3 13 2.4154 - 2.3518 0.99 2762 135 0.2155 0.2565 REMARK 3 14 2.3518 - 2.2945 0.99 2741 153 0.2252 0.2853 REMARK 3 15 2.2945 - 2.2423 0.99 2739 148 0.1973 0.2523 REMARK 3 16 2.2423 - 2.1946 1.00 2752 155 0.2041 0.2205 REMARK 3 17 2.1946 - 2.1507 1.00 2715 169 0.2135 0.2731 REMARK 3 18 2.1507 - 2.1101 1.00 2779 134 0.2132 0.2340 REMARK 3 19 2.1101 - 2.0724 1.00 2768 145 0.2242 0.2837 REMARK 3 20 2.0724 - 2.0373 1.00 2790 140 0.2331 0.2680 REMARK 3 21 2.0373 - 2.0045 1.00 2681 152 0.2381 0.2841 REMARK 3 22 2.0045 - 1.9736 0.99 2757 158 0.2410 0.2699 REMARK 3 23 1.9736 - 1.9446 0.98 2677 149 0.2318 0.2769 REMARK 3 24 1.9446 - 1.9172 0.96 2702 133 0.2484 0.2665 REMARK 3 25 1.9172 - 1.8913 0.93 2629 125 0.2366 0.2647 REMARK 3 26 1.8913 - 1.8667 0.90 2458 126 0.2414 0.2620 REMARK 3 27 1.8667 - 1.8434 0.82 2257 101 0.2451 0.3428 REMARK 3 28 1.8434 - 1.8212 0.73 2015 99 0.2457 0.2851 REMARK 3 29 1.8212 - 1.8000 0.60 1674 87 0.2544 0.3013 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.06 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 40.92 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.110 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.71550 REMARK 3 B22 (A**2) : 0.71550 REMARK 3 B33 (A**2) : -1.43110 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.00000 REMARK 3 B23 (A**2) : -0.00000 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 : 0.007 6308 REMARK 3 ANGLE : 1.088 8565 REMARK 3 CHIRALITY : 0.073 909 REMARK 3 PLANARITY : 0.005 1123 REMARK 3 DIHEDRAL : 12.278 2331 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 3TU2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-SEP-11. REMARK 100 THE RCSB ID CODE IS RCSB067919. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUL-11 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 : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 80784 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 37.397 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL 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 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: BALBES REMARK 200 STARTING MODEL: PDB ENTRY 3SHH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.0 M SODIUM CHLORIDE, 0.1 M HEPES, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 8555 Y+1/2,-X+1/2,Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 59.13000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.13000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.67100 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 59.13000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.13000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.67100 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 59.13000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 59.13000 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 66.67100 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 59.13000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 59.13000 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 66.67100 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 37700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 90820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -161.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 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 PHE A 65 -61.08 -121.20 REMARK 500 GLU A 233 54.87 38.50 REMARK 500 LYS A 263 -137.85 55.07 REMARK 500 THR A 312 161.04 83.81 REMARK 500 ASN A 324 50.16 -90.56 REMARK 500 PHE B 65 -60.49 -120.97 REMARK 500 PHE B 208 131.74 -39.97 REMARK 500 GLU B 233 54.68 38.74 REMARK 500 LYS B 263 -137.92 56.62 REMARK 500 THR B 312 159.52 83.27 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 MG B 399 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 258 OE1 REMARK 620 2 GLU B 232 OE2 89.0 REMARK 620 3 HOH B 541 O 96.9 102.6 REMARK 620 4 ASP B 206 OD1 178.2 90.0 84.8 REMARK 620 5 LLH B 401 O1 92.0 166.0 91.1 88.6 REMARK 620 6 LLH B 401 ON 91.3 89.5 165.5 87.3 76.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 399 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 258 OE1 REMARK 620 2 GLU A 232 OE2 85.4 REMARK 620 3 HOH A 540 O 97.4 101.3 REMARK 620 4 ASP A 206 OD1 177.3 92.3 84.2 REMARK 620 5 LLH A 401 O1 94.0 165.9 92.8 88.0 REMARK 620 6 LLH A 401 ON 93.5 89.5 165.2 85.3 76.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 400 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 250 O REMARK 620 2 SER B 247 O 93.5 REMARK 620 3 HOH B 415 O 177.8 87.8 REMARK 620 4 HOH B 407 O 91.2 94.7 90.5 REMARK 620 5 HOH B 582 O 94.1 172.1 84.5 87.3 REMARK 620 6 HOH B 412 O 86.8 86.1 91.5 177.9 92.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 400 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 250 O REMARK 620 2 SER A 247 O 94.0 REMARK 620 3 HOH A 414 O 176.3 87.4 REMARK 620 4 HOH A 402 O 92.2 96.6 91.0 REMARK 620 5 HOH A 421 O 85.9 88.1 90.8 175.1 REMARK 620 6 HOH A 581 O 94.8 171.2 83.8 84.4 91.3 REMARK 620 N 1 2 3 4 5 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 399 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LLH A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 399 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE LLH B 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SHH RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH TARTRATE DBREF 3TU2 A 1 382 UNP Q7CSI0 Q7CSI0_AGRT5 1 382 DBREF 3TU2 B 1 382 UNP Q7CSI0 Q7CSI0_AGRT5 1 382 SEQADV 3TU2 MET A -19 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY A -18 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER A -17 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER A -16 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -15 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -14 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -13 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -12 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -11 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A -10 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER A -9 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER A -8 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY A -7 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 LEU A -6 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 VAL A -5 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 PRO A -4 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 ARG A -3 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY A -2 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER A -1 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS A 0 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 MET B -19 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY B -18 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER B -17 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER B -16 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -15 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -14 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -13 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -12 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -11 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B -10 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER B -9 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER B -8 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY B -7 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 LEU B -6 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 VAL B -5 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 PRO B -4 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 ARG B -3 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 GLY B -2 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 SER B -1 UNP Q7CSI0 EXPRESSION TAG SEQADV 3TU2 HIS B 0 UNP Q7CSI0 EXPRESSION TAG SEQRES 1 A 402 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 402 LEU VAL PRO ARG GLY SER HIS MET ILE ILE THR ASP VAL SEQRES 3 A 402 GLU VAL ARG VAL PHE ARG THR THR THR ARG ARG HIS SER SEQRES 4 A 402 ASP SER ALA GLY HIS ALA HIS PRO GLY PRO ALA HIS GLN SEQRES 5 A 402 VAL GLU GLN ALA MET LEU THR VAL ARG THR GLU ASP GLY SEQRES 6 A 402 GLN GLU GLY HIS SER PHE THR ALA PRO GLU ILE VAL ARG SEQRES 7 A 402 PRO HIS VAL ILE GLU LYS PHE VAL LYS LYS VAL LEU ILE SEQRES 8 A 402 GLY GLU ASP HIS ARG ASP ARG GLU ARG LEU TRP GLN ASP SEQRES 9 A 402 LEU ALA HIS TRP GLN ARG GLY SER ALA ALA GLN LEU THR SEQRES 10 A 402 ASP ARG THR LEU ALA VAL VAL ASP CYS ALA LEU TRP ASP SEQRES 11 A 402 LEU ALA GLY ARG SER LEU GLY GLN PRO VAL TYR LYS LEU SEQRES 12 A 402 ILE GLY GLY TYR ARG ASP LYS VAL LEU ALA TYR GLY SER SEQRES 13 A 402 ILE MET CYS GLY ASP GLU LEU GLU GLY GLY LEU ALA THR SEQRES 14 A 402 PRO GLU ASP TYR GLY ARG PHE ALA GLU THR LEU VAL LYS SEQRES 15 A 402 ARG GLY TYR LYS GLY ILE LYS LEU HIS THR TRP MET PRO SEQRES 16 A 402 PRO VAL SER TRP ALA PRO ASP VAL LYS MET ASP LEU LYS SEQRES 17 A 402 ALA CYS ALA ALA VAL ARG GLU ALA VAL GLY PRO ASP ILE SEQRES 18 A 402 ARG LEU MET ILE ASP ALA PHE HIS TRP TYR SER ARG THR SEQRES 19 A 402 ASP ALA LEU ALA LEU GLY ARG GLY LEU GLU LYS LEU GLY SEQRES 20 A 402 PHE ASP TRP ILE GLU GLU PRO MET ASP GLU GLN SER LEU SEQRES 21 A 402 SER SER TYR LYS TRP LEU SER ASP ASN LEU ASP ILE PRO SEQRES 22 A 402 VAL VAL GLY PRO GLU SER ALA ALA GLY LYS HIS TRP HIS SEQRES 23 A 402 ARG ALA GLU TRP ILE LYS ALA GLY ALA CYS ASP ILE LEU SEQRES 24 A 402 ARG THR GLY VAL ASN ASP VAL GLY GLY ILE THR PRO ALA SEQRES 25 A 402 LEU LYS THR MET HIS LEU ALA GLU ALA PHE GLY MET GLU SEQRES 26 A 402 CYS GLU VAL HIS GLY ASN THR ALA MET ASN LEU HIS VAL SEQRES 27 A 402 VAL ALA ALA THR LYS ASN CYS ARG TRP TYR GLU ARG GLY SEQRES 28 A 402 LEU LEU HIS PRO PHE LEU GLU TYR ASP ASP GLY HIS ASP SEQRES 29 A 402 TYR LEU LYS SER LEU SER ASP PRO MET ASP ARG ASP GLY SEQRES 30 A 402 PHE VAL HIS VAL PRO ASP ARG PRO GLY LEU GLY GLU ASP SEQRES 31 A 402 ILE ASP PHE THR PHE ILE ASP ASN ASN ARG VAL ARG SEQRES 1 B 402 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 402 LEU VAL PRO ARG GLY SER HIS MET ILE ILE THR ASP VAL SEQRES 3 B 402 GLU VAL ARG VAL PHE ARG THR THR THR ARG ARG HIS SER SEQRES 4 B 402 ASP SER ALA GLY HIS ALA HIS PRO GLY PRO ALA HIS GLN SEQRES 5 B 402 VAL GLU GLN ALA MET LEU THR VAL ARG THR GLU ASP GLY SEQRES 6 B 402 GLN GLU GLY HIS SER PHE THR ALA PRO GLU ILE VAL ARG SEQRES 7 B 402 PRO HIS VAL ILE GLU LYS PHE VAL LYS LYS VAL LEU ILE SEQRES 8 B 402 GLY GLU ASP HIS ARG ASP ARG GLU ARG LEU TRP GLN ASP SEQRES 9 B 402 LEU ALA HIS TRP GLN ARG GLY SER ALA ALA GLN LEU THR SEQRES 10 B 402 ASP ARG THR LEU ALA VAL VAL ASP CYS ALA LEU TRP ASP SEQRES 11 B 402 LEU ALA GLY ARG SER LEU GLY GLN PRO VAL TYR LYS LEU SEQRES 12 B 402 ILE GLY GLY TYR ARG ASP LYS VAL LEU ALA TYR GLY SER SEQRES 13 B 402 ILE MET CYS GLY ASP GLU LEU GLU GLY GLY LEU ALA THR SEQRES 14 B 402 PRO GLU ASP TYR GLY ARG PHE ALA GLU THR LEU VAL LYS SEQRES 15 B 402 ARG GLY TYR LYS GLY ILE LYS LEU HIS THR TRP MET PRO SEQRES 16 B 402 PRO VAL SER TRP ALA PRO ASP VAL LYS MET ASP LEU LYS SEQRES 17 B 402 ALA CYS ALA ALA VAL ARG GLU ALA VAL GLY PRO ASP ILE SEQRES 18 B 402 ARG LEU MET ILE ASP ALA PHE HIS TRP TYR SER ARG THR SEQRES 19 B 402 ASP ALA LEU ALA LEU GLY ARG GLY LEU GLU LYS LEU GLY SEQRES 20 B 402 PHE ASP TRP ILE GLU GLU PRO MET ASP GLU GLN SER LEU SEQRES 21 B 402 SER SER TYR LYS TRP LEU SER ASP ASN LEU ASP ILE PRO SEQRES 22 B 402 VAL VAL GLY PRO GLU SER ALA ALA GLY LYS HIS TRP HIS SEQRES 23 B 402 ARG ALA GLU TRP ILE LYS ALA GLY ALA CYS ASP ILE LEU SEQRES 24 B 402 ARG THR GLY VAL ASN ASP VAL GLY GLY ILE THR PRO ALA SEQRES 25 B 402 LEU LYS THR MET HIS LEU ALA GLU ALA PHE GLY MET GLU SEQRES 26 B 402 CYS GLU VAL HIS GLY ASN THR ALA MET ASN LEU HIS VAL SEQRES 27 B 402 VAL ALA ALA THR LYS ASN CYS ARG TRP TYR GLU ARG GLY SEQRES 28 B 402 LEU LEU HIS PRO PHE LEU GLU TYR ASP ASP GLY HIS ASP SEQRES 29 B 402 TYR LEU LYS SER LEU SER ASP PRO MET ASP ARG ASP GLY SEQRES 30 B 402 PHE VAL HIS VAL PRO ASP ARG PRO GLY LEU GLY GLU ASP SEQRES 31 B 402 ILE ASP PHE THR PHE ILE ASP ASN ASN ARG VAL ARG HET MG A 399 1 HET MG A 400 1 HET LLH A 401 13 HET MG B 399 1 HET MG B 400 1 HET LLH B 401 13 HETNAM MG MAGNESIUM ION HETNAM LLH (2R,3S,4R)-2,3,4-TRIHYDROXY-5-(HYDROXYAMINO)-5- HETNAM 2 LLH OXOPENTANOIC ACID FORMUL 3 MG 4(MG 2+) FORMUL 5 LLH 2(C5 H9 N O7) FORMUL 9 HOH *598(H2 O) HELIX 1 1 ALA A 53 VAL A 57 5 5 HELIX 2 2 ARG A 58 PHE A 65 1 8 HELIX 3 3 PHE A 65 ILE A 71 1 7 HELIX 4 4 ASP A 77 GLN A 89 1 13 HELIX 5 5 THR A 97 GLY A 117 1 21 HELIX 6 6 PRO A 119 GLY A 125 1 7 HELIX 7 7 THR A 149 GLY A 164 1 16 HELIX 8 8 ASP A 182 GLY A 198 1 17 HELIX 9 9 SER A 212 LYS A 225 1 14 HELIX 10 10 SER A 239 LEU A 250 1 12 HELIX 11 11 GLY A 262 ALA A 273 1 12 HELIX 12 12 GLY A 282 GLY A 287 1 6 HELIX 13 13 GLY A 288 PHE A 302 1 15 HELIX 14 14 THR A 312 THR A 322 1 11 HELIX 15 15 GLU A 338 GLY A 342 5 5 HELIX 16 16 ASP A 372 ASN A 379 1 8 HELIX 17 17 ALA B 53 VAL B 57 5 5 HELIX 18 18 ARG B 58 PHE B 65 1 8 HELIX 19 19 PHE B 65 ILE B 71 1 7 HELIX 20 20 ASP B 77 GLN B 89 1 13 HELIX 21 21 THR B 97 GLY B 117 1 21 HELIX 22 22 PRO B 119 GLY B 125 1 7 HELIX 23 23 THR B 149 GLY B 164 1 16 HELIX 24 24 ASP B 182 GLY B 198 1 17 HELIX 25 25 SER B 212 LYS B 225 1 14 HELIX 26 26 SER B 239 LEU B 250 1 12 HELIX 27 27 GLY B 262 ALA B 273 1 12 HELIX 28 28 GLY B 282 GLY B 287 1 6 HELIX 29 29 GLY B 288 PHE B 302 1 15 HELIX 30 30 THR B 312 THR B 322 1 11 HELIX 31 31 GLU B 338 GLY B 342 5 5 HELIX 32 32 ASP B 372 ASN B 379 1 8 SHEET 1 A 3 ILE A 3 SER A 19 0 SHEET 2 A 3 ALA A 25 THR A 42 -1 O HIS A 26 N HIS A 18 SHEET 3 A 3 GLU A 47 THR A 52 -1 O SER A 50 N LEU A 38 SHEET 1 B 8 CYS A 306 VAL A 308 0 SHEET 2 B 8 ILE A 278 THR A 281 1 N LEU A 279 O GLU A 307 SHEET 3 B 8 VAL A 254 GLY A 256 1 N GLY A 256 O ILE A 278 SHEET 4 B 8 TRP A 230 GLU A 232 1 N ILE A 231 O VAL A 255 SHEET 5 B 8 ARG A 202 ASP A 206 1 N ILE A 205 O GLU A 232 SHEET 6 B 8 GLY A 167 HIS A 171 1 N LEU A 170 O ASP A 206 SHEET 7 B 8 LYS A 130 ILE A 137 1 N ILE A 137 O LYS A 169 SHEET 8 B 8 TYR A 328 LEU A 333 1 O ARG A 330 N SER A 136 SHEET 1 C 8 CYS A 306 VAL A 308 0 SHEET 2 C 8 ILE A 278 THR A 281 1 N LEU A 279 O GLU A 307 SHEET 3 C 8 VAL A 254 GLY A 256 1 N GLY A 256 O ILE A 278 SHEET 4 C 8 TRP A 230 GLU A 232 1 N ILE A 231 O VAL A 255 SHEET 5 C 8 ARG A 202 ASP A 206 1 N ILE A 205 O GLU A 232 SHEET 6 C 8 GLY A 167 HIS A 171 1 N LEU A 170 O ASP A 206 SHEET 7 C 8 LYS A 130 ILE A 137 1 N ILE A 137 O LYS A 169 SHEET 8 C 8 PHE A 358 HIS A 360 -1 O VAL A 359 N VAL A 131 SHEET 1 D 3 ILE B 3 SER B 19 0 SHEET 2 D 3 ALA B 25 THR B 42 -1 O THR B 39 N GLU B 7 SHEET 3 D 3 GLU B 47 THR B 52 -1 O SER B 50 N LEU B 38 SHEET 1 E 8 CYS B 306 VAL B 308 0 SHEET 2 E 8 ILE B 278 THR B 281 1 N LEU B 279 O GLU B 307 SHEET 3 E 8 VAL B 254 GLY B 256 1 N GLY B 256 O ILE B 278 SHEET 4 E 8 TRP B 230 GLU B 232 1 N ILE B 231 O VAL B 255 SHEET 5 E 8 ARG B 202 ASP B 206 1 N ILE B 205 O GLU B 232 SHEET 6 E 8 GLY B 167 HIS B 171 1 N LEU B 170 O ASP B 206 SHEET 7 E 8 LYS B 130 ILE B 137 1 N ILE B 137 O LYS B 169 SHEET 8 E 8 TYR B 328 LEU B 333 1 O ARG B 330 N SER B 136 SHEET 1 F 8 CYS B 306 VAL B 308 0 SHEET 2 F 8 ILE B 278 THR B 281 1 N LEU B 279 O GLU B 307 SHEET 3 F 8 VAL B 254 GLY B 256 1 N GLY B 256 O ILE B 278 SHEET 4 F 8 TRP B 230 GLU B 232 1 N ILE B 231 O VAL B 255 SHEET 5 F 8 ARG B 202 ASP B 206 1 N ILE B 205 O GLU B 232 SHEET 6 F 8 GLY B 167 HIS B 171 1 N LEU B 170 O ASP B 206 SHEET 7 F 8 LYS B 130 ILE B 137 1 N ILE B 137 O LYS B 169 SHEET 8 F 8 PHE B 358 HIS B 360 -1 O VAL B 359 N VAL B 131 LINK OE1 GLU B 258 MG MG B 399 1555 1555 2.05 LINK OE1 GLU A 258 MG MG A 399 1555 1555 2.09 LINK O LEU B 250 MG MG B 400 1555 1555 2.10 LINK O LEU A 250 MG MG A 400 1555 1555 2.12 LINK OE2 GLU B 232 MG MG B 399 1555 1555 2.12 LINK OE2 GLU A 232 MG MG A 399 1555 1555 2.13 LINK MG MG A 399 O HOH A 540 1555 1555 2.14 LINK MG MG B 399 O HOH B 541 1555 1555 2.14 LINK OD1 ASP B 206 MG MG B 399 1555 1555 2.17 LINK O SER A 247 MG MG A 400 1555 1555 2.18 LINK OD1 ASP A 206 MG MG A 399 1555 1555 2.19 LINK O SER B 247 MG MG B 400 1555 1555 2.20 LINK MG MG B 400 O HOH B 415 1555 1555 2.22 LINK MG MG A 399 O1 LLH A 401 1555 1555 2.22 LINK MG MG A 400 O HOH A 414 1555 1555 2.23 LINK MG MG A 400 O HOH A 402 1555 1555 2.23 LINK MG MG B 399 O1 LLH B 401 1555 1555 2.23 LINK MG MG B 400 O HOH B 407 1555 1555 2.23 LINK MG MG A 400 O HOH A 421 1555 1555 2.25 LINK MG MG B 400 O HOH B 582 1555 1555 2.26 LINK MG MG A 400 O HOH A 581 1555 1555 2.29 LINK MG MG B 400 O HOH B 412 1555 1555 2.29 LINK MG MG B 399 ON LLH B 401 1555 1555 2.31 LINK MG MG A 399 ON LLH A 401 1555 1555 2.32 CISPEP 1 PRO A 175 PRO A 176 0 7.84 CISPEP 2 ALA A 180 PRO A 181 0 -1.30 CISPEP 3 GLY A 256 PRO A 257 0 1.98 CISPEP 4 GLY A 331 LEU A 332 0 7.67 CISPEP 5 PRO B 175 PRO B 176 0 7.15 CISPEP 6 ALA B 180 PRO B 181 0 -0.88 CISPEP 7 GLY B 256 PRO B 257 0 1.75 CISPEP 8 GLY B 331 LEU B 332 0 7.28 SITE 1 AC1 5 ASP A 206 GLU A 232 GLU A 258 LLH A 401 SITE 2 AC1 5 HOH A 540 SITE 1 AC2 6 SER A 247 LEU A 250 HOH A 402 HOH A 414 SITE 2 AC2 6 HOH A 421 HOH A 581 SITE 1 AC3 15 HIS A 24 CYS A 139 LYS A 169 HIS A 171 SITE 2 AC3 15 ASP A 206 HIS A 209 GLU A 232 GLU A 258 SITE 3 AC3 15 ARG A 280 HIS A 309 GLU A 329 MG A 399 SITE 4 AC3 15 HOH A 620 HOH A 623 ARG B 90 SITE 1 AC4 5 ASP B 206 GLU B 232 GLU B 258 LLH B 401 SITE 2 AC4 5 HOH B 541 SITE 1 AC5 6 SER B 247 LEU B 250 HOH B 407 HOH B 412 SITE 2 AC5 6 HOH B 415 HOH B 582 SITE 1 AC6 15 ARG A 90 HIS B 24 CYS B 139 LYS B 169 SITE 2 AC6 15 HIS B 171 ASP B 206 HIS B 209 GLU B 232 SITE 3 AC6 15 GLU B 258 ARG B 280 HIS B 309 GLU B 329 SITE 4 AC6 15 MG B 399 HOH B 583 HOH B 616 CRYST1 118.260 118.260 133.342 90.00 90.00 90.00 I 4 16 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 0.008456 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008456 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007500 0.00000