HEADER ISOMERASE 03-AUG-18 6H9F TITLE STRUCTURE OF GLUTAMATE MUTASE RECONSTITUTED WITH BISHOMO-COENZYME B12 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE MUTASE SIGMA SUBUNIT; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: GLUTAMATE MUTASE S CHAIN,GLUTAMATE MUTASE SMALL SUBUNIT, COMPND 5 METHYLASPARTATE MUTASE; COMPND 6 EC: 5.4.99.1; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: SMALL SUBUNIT; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: GLUTAMATE MUTASE EPSILON SUBUNIT; COMPND 11 CHAIN: B, D; COMPND 12 SYNONYM: GLUTAMATE MUTASE E CHAIN,GLUTAMATE MUTASE LARGE SUBUNIT, COMPND 13 METHYLASPARTATE MUTASE; COMPND 14 EC: 5.4.99.1; COMPND 15 ENGINEERED: YES; COMPND 16 OTHER_DETAILS: LARGE SUBUNIT SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM COCHLEARIUM; SOURCE 3 ORGANISM_TAXID: 1494; SOURCE 4 GENE: GLMS; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: CLOSTRIDIUM COCHLEARIUM; SOURCE 9 ORGANISM_TAXID: 1494; SOURCE 10 GENE: GLME; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COENZYME B12, CO-C-BOND, RADICAL REACTION, TIM-BARREL, ROSSMAN-FOLD, KEYWDS 2 ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.GRUBER,V.CSITKOVITS,C.KRATKY REVDAT 3 31-JAN-24 6H9F 1 REMARK REVDAT 2 26-OCT-22 6H9F 1 JRNL LINK REVDAT 1 14-AUG-19 6H9F 0 JRNL AUTH K.GRUBER,V.CSITKOVITS,A.LYSKOWSKI,C.KRATKY,B.KRAUTLER JRNL TITL STRUCTURE-BASED DEMYSTIFICATION OF RADICAL CATALYSIS BY A JRNL TITL 2 COENZYME B 12 DEPENDENT ENZYME-CRYSTALLOGRAPHIC STUDY OF JRNL TITL 3 GLUTAMATE MUTASE WITH COFACTOR HOMOLOGUES. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 61 08295 2022 JRNL REFN ESSN 1521-3773 JRNL PMID 35793207 JRNL DOI 10.1002/ANIE.202208295 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.35 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 88134 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 4528 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 35.3500 - 6.5100 0.99 2790 209 0.1444 0.1666 REMARK 3 2 6.5100 - 5.1700 1.00 2811 162 0.1417 0.1624 REMARK 3 3 5.1700 - 4.5200 1.00 2810 151 0.1091 0.1300 REMARK 3 4 4.5200 - 4.1100 1.00 2793 168 0.1036 0.1381 REMARK 3 5 4.1100 - 3.8100 1.00 2805 146 0.1126 0.1645 REMARK 3 6 3.8100 - 3.5900 1.00 2803 152 0.1208 0.1563 REMARK 3 7 3.5900 - 3.4100 1.00 2806 133 0.1305 0.1590 REMARK 3 8 3.4100 - 3.2600 1.00 2804 136 0.1418 0.1963 REMARK 3 9 3.2600 - 3.1400 1.00 2758 177 0.1468 0.1992 REMARK 3 10 3.1400 - 3.0300 1.00 2789 145 0.1464 0.1950 REMARK 3 11 3.0300 - 2.9300 1.00 2742 168 0.1541 0.2201 REMARK 3 12 2.9300 - 2.8500 1.00 2831 154 0.1485 0.1973 REMARK 3 13 2.8500 - 2.7700 1.00 2741 153 0.1531 0.2197 REMARK 3 14 2.7700 - 2.7100 1.00 2814 151 0.1607 0.2025 REMARK 3 15 2.7100 - 2.6500 1.00 2781 126 0.1626 0.2320 REMARK 3 16 2.6500 - 2.5900 1.00 2788 175 0.1629 0.1971 REMARK 3 17 2.5900 - 2.5400 1.00 2734 171 0.1716 0.2135 REMARK 3 18 2.5400 - 2.4900 1.00 2793 152 0.1704 0.2485 REMARK 3 19 2.4900 - 2.4500 1.00 2773 135 0.1757 0.2279 REMARK 3 20 2.4500 - 2.4000 1.00 2810 140 0.1840 0.2286 REMARK 3 21 2.4000 - 2.3700 1.00 2759 145 0.1919 0.2447 REMARK 3 22 2.3700 - 2.3300 1.00 2807 148 0.1953 0.2295 REMARK 3 23 2.3300 - 2.2900 1.00 2746 144 0.1950 0.2548 REMARK 3 24 2.2900 - 2.2600 1.00 2779 143 0.1971 0.2701 REMARK 3 25 2.2600 - 2.2300 1.00 2834 149 0.2024 0.2731 REMARK 3 26 2.2300 - 2.2000 1.00 2749 120 0.2110 0.3018 REMARK 3 27 2.2000 - 2.1700 1.00 2817 137 0.2151 0.2600 REMARK 3 28 2.1700 - 2.1500 1.00 2790 143 0.2190 0.2576 REMARK 3 29 2.1500 - 2.1200 1.00 2724 150 0.2224 0.2866 REMARK 3 30 2.1200 - 2.1000 1.00 2825 145 0.2417 0.3214 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.223 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.111 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.74 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.49 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 : 0.007 10044 REMARK 3 ANGLE : 0.868 13622 REMARK 3 CHIRALITY : 0.050 1494 REMARK 3 PLANARITY : 0.005 1760 REMARK 3 DIHEDRAL : 10.935 5910 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 6H9F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1200011271. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9080 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88205 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 35.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.20700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.64250 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 1CCW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% (W/V) PEG-4000, 0.1 M DL-TARTRATE, REMARK 280 PH=4.5, 2 MM CDCL2, PH 4.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 56.14300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH D 986 O HOH D 991 2.11 REMARK 500 O HOH D 1099 O HOH D 1146 2.13 REMARK 500 O HOH B 891 O HOH B 994 2.15 REMARK 500 O HOH D 988 O HOH D 1037 2.15 REMARK 500 O HOH A 420 O HOH A 422 2.15 REMARK 500 NE2 GLN B 451 O HOH B 601 2.16 REMARK 500 O HOH A 314 O HOH A 424 2.16 REMARK 500 O HOH D 840 O HOH D 876 2.19 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 LEU A 83 37.80 -99.78 REMARK 500 ALA B 67 138.23 -174.07 REMARK 500 ARG B 103 69.73 -102.91 REMARK 500 HIS B 150 -126.03 -157.42 REMARK 500 ASN B 178 -75.56 -112.38 REMARK 500 LEU B 219 -120.23 55.79 REMARK 500 TRP B 293 110.63 -9.10 REMARK 500 ILE B 332 -60.03 -104.02 REMARK 500 GLU C 2 95.20 -169.71 REMARK 500 LEU C 83 50.24 -96.75 REMARK 500 ALA D 67 139.81 -172.74 REMARK 500 ARG D 103 68.66 -103.61 REMARK 500 HIS D 150 -123.81 -155.26 REMARK 500 ASN D 178 -71.84 -114.42 REMARK 500 LEU D 219 -112.27 57.75 REMARK 500 TRP D 293 111.80 -10.99 REMARK 500 ILE D 332 -60.72 -106.32 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 PRO B 92 SER B 93 143.89 REMARK 500 PRO D 92 SER D 93 145.68 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 B1147 DISTANCE = 6.83 ANGSTROMS REMARK 525 HOH B1148 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH D1147 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH D1148 DISTANCE = 6.89 ANGSTROMS 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 B12 A 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 16 NE2 REMARK 620 2 B12 A 201 N21 94.1 REMARK 620 3 B12 A 201 N22 85.9 90.8 REMARK 620 4 B12 A 201 N23 84.8 172.4 96.6 REMARK 620 5 B12 A 201 N24 94.3 84.0 174.8 88.6 REMARK 620 6 8ZB B 501 C24 166.3 96.8 102.2 83.3 78.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 B12 C 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 16 NE2 REMARK 620 2 B12 C 201 N21 96.7 REMARK 620 3 B12 C 201 N22 89.0 90.7 REMARK 620 4 B12 C 201 N23 83.0 172.7 96.6 REMARK 620 5 B12 C 201 N24 92.2 83.7 174.4 89.0 REMARK 620 6 8ZB D 501 C24 166.9 95.7 95.1 84.2 84.9 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 B12 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8ZB B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TAR B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue B12 C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 8ZB D 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TAR D 502 DBREF 6H9F A 1 137 UNP P80078 GMSS_CLOCO 1 137 DBREF 6H9F B 1 483 UNP P80077 GLME_CLOCO 1 483 DBREF 6H9F C 1 137 UNP P80078 GMSS_CLOCO 1 137 DBREF 6H9F D 1 483 UNP P80077 GLME_CLOCO 1 483 SEQADV 6H9F ASN A 45 UNP P80078 VAL 45 CONFLICT SEQADV 6H9F VAL A 60 UNP P80078 LEU 60 CONFLICT SEQADV 6H9F HIS B 130 UNP P80077 TYR 130 CONFLICT SEQADV 6H9F ASN C 45 UNP P80078 VAL 45 CONFLICT SEQADV 6H9F VAL C 60 UNP P80078 LEU 60 CONFLICT SEQADV 6H9F HIS D 130 UNP P80077 TYR 130 CONFLICT SEQRES 1 A 137 MET GLU LYS LYS THR ILE VAL LEU GLY VAL ILE GLY SER SEQRES 2 A 137 ASP CYS HIS ALA VAL GLY ASN LYS ILE LEU ASP HIS ALA SEQRES 3 A 137 PHE THR ASN ALA GLY PHE ASN VAL VAL ASN ILE GLY VAL SEQRES 4 A 137 LEU SER PRO GLN GLU ASN PHE ILE LYS ALA ALA ILE GLU SEQRES 5 A 137 THR LYS ALA ASP ALA ILE LEU VAL SER SER LEU TYR GLY SEQRES 6 A 137 GLN GLY GLU ILE ASP CYS LYS GLY LEU ARG GLN LYS CYS SEQRES 7 A 137 ASP GLU ALA GLY LEU GLU GLY ILE LEU LEU TYR VAL GLY SEQRES 8 A 137 GLY ASN ILE VAL VAL GLY LYS GLN HIS TRP PRO ASP VAL SEQRES 9 A 137 GLU LYS ARG PHE LYS ASP MET GLY TYR ASP ARG VAL TYR SEQRES 10 A 137 ALA PRO GLY THR PRO PRO GLU VAL GLY ILE ALA ASP LEU SEQRES 11 A 137 LYS LYS ASP LEU ASN ILE GLU SEQRES 1 B 483 MET GLU LEU LYS ASN LYS LYS TRP THR ASP GLU GLU PHE SEQRES 2 B 483 HIS LYS GLN ARG GLU GLU VAL LEU GLN GLN TRP PRO THR SEQRES 3 B 483 GLY LYS GLU VAL ASP LEU GLN GLU ALA VAL ASP TYR LEU SEQRES 4 B 483 LYS LYS ILE PRO ALA GLU LYS ASN PHE ALA GLU LYS LEU SEQRES 5 B 483 VAL LEU ALA LYS LYS LYS GLY ILE THR MET ALA GLN PRO SEQRES 6 B 483 ARG ALA GLY VAL ALA LEU LEU ASP GLU HIS ILE GLU LEU SEQRES 7 B 483 LEU ARG TYR LEU GLN ASP GLU GLY GLY ALA ASP PHE LEU SEQRES 8 B 483 PRO SER THR ILE ASP ALA TYR THR ARG GLN ASN ARG TYR SEQRES 9 B 483 ASP GLU CYS GLU ASN GLY ILE LYS GLU SER GLU LYS ALA SEQRES 10 B 483 GLY ARG SER LEU LEU ASN GLY PHE PRO GLY VAL ASN HIS SEQRES 11 B 483 GLY VAL LYS GLY CYS ARG LYS VAL LEU GLU ALA VAL ASN SEQRES 12 B 483 LEU PRO LEU GLN ALA ARG HIS GLY THR PRO ASP SER ARG SEQRES 13 B 483 LEU LEU ALA GLU ILE ILE HIS ALA GLY GLY TRP THR SER SEQRES 14 B 483 ASN GLU GLY GLY GLY ILE SER TYR ASN VAL PRO TYR ALA SEQRES 15 B 483 LYS ASN VAL THR ILE GLU LYS SER LEU LEU ASP TRP GLN SEQRES 16 B 483 TYR CYS ASP ARG LEU VAL GLY PHE TYR GLU GLU GLN GLY SEQRES 17 B 483 VAL HIS ILE ASN ARG GLU PRO PHE GLY PRO LEU THR GLY SEQRES 18 B 483 THR LEU VAL PRO PRO SER MET SER ASN ALA VAL GLY ILE SEQRES 19 B 483 THR GLU ALA LEU LEU ALA ALA GLU GLN GLY VAL LYS ASN SEQRES 20 B 483 ILE THR VAL GLY TYR GLY GLU CYS GLY ASN MET ILE GLN SEQRES 21 B 483 ASP ILE ALA ALA LEU ARG CYS LEU GLU GLU GLN THR ASN SEQRES 22 B 483 GLU TYR LEU LYS ALA TYR GLY TYR ASN ASP VAL PHE VAL SEQRES 23 B 483 THR THR VAL PHE HIS GLN TRP MET GLY GLY PHE PRO GLN SEQRES 24 B 483 ASP GLU SER LYS ALA PHE GLY VAL ILE VAL THR ALA THR SEQRES 25 B 483 THR ILE ALA ALA LEU ALA GLY ALA THR LYS VAL ILE VAL SEQRES 26 B 483 LYS THR PRO HIS GLU ALA ILE GLY ILE PRO THR LYS GLU SEQRES 27 B 483 ALA ASN ALA ALA GLY ILE LYS ALA THR LYS MET ALA LEU SEQRES 28 B 483 ASN MET LEU GLU GLY GLN ARG MET PRO MET SER LYS GLU SEQRES 29 B 483 LEU GLU THR GLU MET ALA VAL ILE LYS ALA GLU THR LYS SEQRES 30 B 483 CYS ILE LEU ASP LYS MET PHE GLU LEU GLY LYS GLY ASP SEQRES 31 B 483 LEU ALA ILE GLY THR VAL LYS ALA PHE GLU THR GLY VAL SEQRES 32 B 483 MET ASP ILE PRO PHE GLY PRO SER LYS TYR ASN ALA GLY SEQRES 33 B 483 LYS MET MET PRO VAL ARG ASP ASN LEU GLY CYS VAL ARG SEQRES 34 B 483 TYR LEU GLU PHE GLY ASN VAL PRO PHE THR GLU GLU ILE SEQRES 35 B 483 LYS ASN TYR ASN ARG GLU ARG LEU GLN GLU ARG ALA LYS SEQRES 36 B 483 PHE GLU GLY ARG ASP VAL SER PHE GLN MET VAL ILE ASP SEQRES 37 B 483 ASP ILE PHE ALA VAL GLY LYS GLY ARG LEU ILE GLY ARG SEQRES 38 B 483 PRO GLU SEQRES 1 C 137 MET GLU LYS LYS THR ILE VAL LEU GLY VAL ILE GLY SER SEQRES 2 C 137 ASP CYS HIS ALA VAL GLY ASN LYS ILE LEU ASP HIS ALA SEQRES 3 C 137 PHE THR ASN ALA GLY PHE ASN VAL VAL ASN ILE GLY VAL SEQRES 4 C 137 LEU SER PRO GLN GLU ASN PHE ILE LYS ALA ALA ILE GLU SEQRES 5 C 137 THR LYS ALA ASP ALA ILE LEU VAL SER SER LEU TYR GLY SEQRES 6 C 137 GLN GLY GLU ILE ASP CYS LYS GLY LEU ARG GLN LYS CYS SEQRES 7 C 137 ASP GLU ALA GLY LEU GLU GLY ILE LEU LEU TYR VAL GLY SEQRES 8 C 137 GLY ASN ILE VAL VAL GLY LYS GLN HIS TRP PRO ASP VAL SEQRES 9 C 137 GLU LYS ARG PHE LYS ASP MET GLY TYR ASP ARG VAL TYR SEQRES 10 C 137 ALA PRO GLY THR PRO PRO GLU VAL GLY ILE ALA ASP LEU SEQRES 11 C 137 LYS LYS ASP LEU ASN ILE GLU SEQRES 1 D 483 MET GLU LEU LYS ASN LYS LYS TRP THR ASP GLU GLU PHE SEQRES 2 D 483 HIS LYS GLN ARG GLU GLU VAL LEU GLN GLN TRP PRO THR SEQRES 3 D 483 GLY LYS GLU VAL ASP LEU GLN GLU ALA VAL ASP TYR LEU SEQRES 4 D 483 LYS LYS ILE PRO ALA GLU LYS ASN PHE ALA GLU LYS LEU SEQRES 5 D 483 VAL LEU ALA LYS LYS LYS GLY ILE THR MET ALA GLN PRO SEQRES 6 D 483 ARG ALA GLY VAL ALA LEU LEU ASP GLU HIS ILE GLU LEU SEQRES 7 D 483 LEU ARG TYR LEU GLN ASP GLU GLY GLY ALA ASP PHE LEU SEQRES 8 D 483 PRO SER THR ILE ASP ALA TYR THR ARG GLN ASN ARG TYR SEQRES 9 D 483 ASP GLU CYS GLU ASN GLY ILE LYS GLU SER GLU LYS ALA SEQRES 10 D 483 GLY ARG SER LEU LEU ASN GLY PHE PRO GLY VAL ASN HIS SEQRES 11 D 483 GLY VAL LYS GLY CYS ARG LYS VAL LEU GLU ALA VAL ASN SEQRES 12 D 483 LEU PRO LEU GLN ALA ARG HIS GLY THR PRO ASP SER ARG SEQRES 13 D 483 LEU LEU ALA GLU ILE ILE HIS ALA GLY GLY TRP THR SER SEQRES 14 D 483 ASN GLU GLY GLY GLY ILE SER TYR ASN VAL PRO TYR ALA SEQRES 15 D 483 LYS ASN VAL THR ILE GLU LYS SER LEU LEU ASP TRP GLN SEQRES 16 D 483 TYR CYS ASP ARG LEU VAL GLY PHE TYR GLU GLU GLN GLY SEQRES 17 D 483 VAL HIS ILE ASN ARG GLU PRO PHE GLY PRO LEU THR GLY SEQRES 18 D 483 THR LEU VAL PRO PRO SER MET SER ASN ALA VAL GLY ILE SEQRES 19 D 483 THR GLU ALA LEU LEU ALA ALA GLU GLN GLY VAL LYS ASN SEQRES 20 D 483 ILE THR VAL GLY TYR GLY GLU CYS GLY ASN MET ILE GLN SEQRES 21 D 483 ASP ILE ALA ALA LEU ARG CYS LEU GLU GLU GLN THR ASN SEQRES 22 D 483 GLU TYR LEU LYS ALA TYR GLY TYR ASN ASP VAL PHE VAL SEQRES 23 D 483 THR THR VAL PHE HIS GLN TRP MET GLY GLY PHE PRO GLN SEQRES 24 D 483 ASP GLU SER LYS ALA PHE GLY VAL ILE VAL THR ALA THR SEQRES 25 D 483 THR ILE ALA ALA LEU ALA GLY ALA THR LYS VAL ILE VAL SEQRES 26 D 483 LYS THR PRO HIS GLU ALA ILE GLY ILE PRO THR LYS GLU SEQRES 27 D 483 ALA ASN ALA ALA GLY ILE LYS ALA THR LYS MET ALA LEU SEQRES 28 D 483 ASN MET LEU GLU GLY GLN ARG MET PRO MET SER LYS GLU SEQRES 29 D 483 LEU GLU THR GLU MET ALA VAL ILE LYS ALA GLU THR LYS SEQRES 30 D 483 CYS ILE LEU ASP LYS MET PHE GLU LEU GLY LYS GLY ASP SEQRES 31 D 483 LEU ALA ILE GLY THR VAL LYS ALA PHE GLU THR GLY VAL SEQRES 32 D 483 MET ASP ILE PRO PHE GLY PRO SER LYS TYR ASN ALA GLY SEQRES 33 D 483 LYS MET MET PRO VAL ARG ASP ASN LEU GLY CYS VAL ARG SEQRES 34 D 483 TYR LEU GLU PHE GLY ASN VAL PRO PHE THR GLU GLU ILE SEQRES 35 D 483 LYS ASN TYR ASN ARG GLU ARG LEU GLN GLU ARG ALA LYS SEQRES 36 D 483 PHE GLU GLY ARG ASP VAL SER PHE GLN MET VAL ILE ASP SEQRES 37 D 483 ASP ILE PHE ALA VAL GLY LYS GLY ARG LEU ILE GLY ARG SEQRES 38 D 483 PRO GLU HET B12 A 201 91 HET 8ZB B 501 20 HET TAR B 502 10 HET B12 C 201 91 HET 8ZB D 501 20 HET TAR D 502 10 HETNAM B12 COBALAMIN HETNAM 8ZB (2~{R},3~{R},4~{S},5~{R})-2-(6-AMINOPURIN-9-YL)-5- HETNAM 2 8ZB PROPYL-OXOLANE-3,4-DIOL HETNAM TAR D(-)-TARTARIC ACID FORMUL 5 B12 2(C62 H89 CO N13 O14 P 2+) FORMUL 6 8ZB 2(C12 H17 N5 O3) FORMUL 7 TAR 2(C4 H6 O6) FORMUL 11 HOH *1354(H2 O) HELIX 1 AA1 ALA A 17 ALA A 30 1 14 HELIX 2 AA2 PRO A 42 LYS A 54 1 13 HELIX 3 AA3 GLN A 66 CYS A 71 1 6 HELIX 4 AA4 GLY A 73 ALA A 81 1 9 HELIX 5 AA5 HIS A 100 MET A 111 1 12 HELIX 6 AA6 PRO A 122 LEU A 134 1 13 HELIX 7 AA7 THR B 9 LEU B 21 1 13 HELIX 8 AA8 GLN B 22 VAL B 30 5 9 HELIX 9 AA9 ASP B 31 ILE B 42 1 12 HELIX 10 AB1 PRO B 43 LYS B 46 5 4 HELIX 11 AB2 ASN B 47 GLY B 59 1 13 HELIX 12 AB3 LEU B 71 GLU B 85 1 15 HELIX 13 AB4 ASP B 96 GLN B 101 1 6 HELIX 14 AB5 ARG B 103 GLY B 118 1 16 HELIX 15 AB6 PRO B 126 VAL B 142 1 17 HELIX 16 AB7 SER B 155 GLY B 165 1 11 HELIX 17 AB8 THR B 186 GLN B 207 1 22 HELIX 18 AB9 PRO B 225 GLN B 243 1 19 HELIX 19 AC1 ASN B 257 TYR B 279 1 23 HELIX 20 AC2 ASP B 300 GLY B 319 1 20 HELIX 21 AC3 THR B 336 LEU B 354 1 19 HELIX 22 AC4 SER B 362 GLY B 387 1 26 HELIX 23 AC5 ASP B 390 THR B 401 1 12 HELIX 24 AC6 THR B 439 GLY B 458 1 20 HELIX 25 AC7 SER B 462 VAL B 473 1 12 HELIX 26 AC8 GLY B 474 GLY B 476 5 3 HELIX 27 AC9 ALA C 17 ALA C 30 1 14 HELIX 28 AD1 PRO C 42 LYS C 54 1 13 HELIX 29 AD2 GLN C 66 CYS C 71 1 6 HELIX 30 AD3 GLY C 73 ALA C 81 1 9 HELIX 31 AD4 HIS C 100 ASP C 110 1 11 HELIX 32 AD5 PRO C 122 LEU C 134 1 13 HELIX 33 AD6 THR D 9 LEU D 21 1 13 HELIX 34 AD7 GLN D 22 GLN D 23 5 2 HELIX 35 AD8 TRP D 24 VAL D 30 5 7 HELIX 36 AD9 ASP D 31 LYS D 41 1 11 HELIX 37 AE1 ILE D 42 LYS D 46 5 5 HELIX 38 AE2 ASN D 47 GLY D 59 1 13 HELIX 39 AE3 LEU D 71 GLU D 85 1 15 HELIX 40 AE4 ASP D 96 GLN D 101 1 6 HELIX 41 AE5 ARG D 103 GLY D 118 1 16 HELIX 42 AE6 PRO D 126 VAL D 142 1 17 HELIX 43 AE7 SER D 155 GLY D 165 1 11 HELIX 44 AE8 THR D 186 GLN D 207 1 22 HELIX 45 AE9 PRO D 225 GLN D 243 1 19 HELIX 46 AF1 ASN D 257 TYR D 279 1 23 HELIX 47 AF2 ASP D 300 GLY D 319 1 20 HELIX 48 AF3 THR D 336 LEU D 354 1 19 HELIX 49 AF4 SER D 362 GLY D 387 1 26 HELIX 50 AF5 ASP D 390 THR D 401 1 12 HELIX 51 AF6 THR D 439 GLY D 458 1 20 HELIX 52 AF7 SER D 462 VAL D 473 1 12 SHEET 1 AA1 5 ASN A 33 SER A 41 0 SHEET 2 AA1 5 THR A 5 ILE A 11 1 N ILE A 6 O VAL A 35 SHEET 3 AA1 5 ALA A 57 SER A 62 1 O LEU A 59 N VAL A 7 SHEET 4 AA1 5 LEU A 87 GLY A 92 1 O TYR A 89 N VAL A 60 SHEET 5 AA1 5 ARG A 115 VAL A 116 1 O ARG A 115 N VAL A 90 SHEET 1 AA2 8 MET B 62 GLN B 64 0 SHEET 2 AA2 8 LYS B 322 ILE B 324 1 O VAL B 323 N MET B 62 SHEET 3 AA2 8 PHE B 285 HIS B 291 1 N PHE B 290 O LYS B 322 SHEET 4 AA2 8 ASN B 247 GLY B 253 1 N TYR B 252 O HIS B 291 SHEET 5 AA2 8 ASN B 212 GLU B 214 1 N ARG B 213 O THR B 249 SHEET 6 AA2 8 SER B 169 GLU B 171 1 N ASN B 170 O ASN B 212 SHEET 7 AA2 8 LEU B 146 ARG B 149 1 N ALA B 148 O SER B 169 SHEET 8 AA2 8 LEU B 91 THR B 94 1 N SER B 93 O ARG B 149 SHEET 1 AA3 2 MET B 419 ARG B 422 0 SHEET 2 AA3 2 VAL B 428 GLU B 432 -1 O ARG B 429 N VAL B 421 SHEET 1 AA4 5 ASN C 33 SER C 41 0 SHEET 2 AA4 5 THR C 5 ILE C 11 1 N ILE C 6 O VAL C 35 SHEET 3 AA4 5 ALA C 57 SER C 62 1 O LEU C 59 N VAL C 7 SHEET 4 AA4 5 LEU C 87 GLY C 92 1 O TYR C 89 N VAL C 60 SHEET 5 AA4 5 ARG C 115 VAL C 116 1 O ARG C 115 N VAL C 90 SHEET 1 AA5 8 MET D 62 GLN D 64 0 SHEET 2 AA5 8 LYS D 322 ILE D 324 1 O VAL D 323 N MET D 62 SHEET 3 AA5 8 PHE D 285 HIS D 291 1 N PHE D 290 O LYS D 322 SHEET 4 AA5 8 ASN D 247 GLY D 253 1 N TYR D 252 O HIS D 291 SHEET 5 AA5 8 ASN D 212 GLU D 214 1 N ARG D 213 O THR D 249 SHEET 6 AA5 8 SER D 169 GLU D 171 1 N ASN D 170 O ASN D 212 SHEET 7 AA5 8 LEU D 146 ARG D 149 1 N ALA D 148 O GLU D 171 SHEET 8 AA5 8 LEU D 91 THR D 94 1 N SER D 93 O ARG D 149 SHEET 1 AA6 2 MET D 419 ARG D 422 0 SHEET 2 AA6 2 VAL D 428 GLU D 432 -1 O ARG D 429 N VAL D 421 LINK NE2 HIS A 16 CO B12 A 201 1555 1555 2.19 LINK CO B12 A 201 C24 8ZB B 501 1555 1555 1.99 LINK NE2 HIS C 16 CO B12 C 201 1555 1555 2.15 LINK CO B12 C 201 C24 8ZB D 501 1555 1555 1.98 SITE 1 AC1 49 SER A 13 ASP A 14 CYS A 15 HIS A 16 SITE 2 AC1 49 ALA A 17 VAL A 18 GLY A 19 LEU A 23 SITE 3 AC1 49 SER A 61 LEU A 63 TYR A 64 GLY A 65 SITE 4 AC1 49 GLY A 91 GLY A 92 ASN A 93 VAL A 95 SITE 5 AC1 49 VAL A 96 GLY A 97 TYR A 117 THR A 121 SITE 6 AC1 49 PRO A 123 HOH A 302 HOH A 306 HOH A 318 SITE 7 AC1 49 HOH A 332 HOH A 333 HOH A 336 HOH A 341 SITE 8 AC1 49 HOH A 378 ILE B 95 ALA B 97 ARG B 100 SITE 9 AC1 49 ASN B 123 PRO B 180 LEU B 219 THR B 220 SITE 10 AC1 49 MET B 294 GLY B 295 GLY B 296 PHE B 297 SITE 11 AC1 49 HIS B 329 GLU B 330 GLY B 333 ILE B 334 SITE 12 AC1 49 PRO B 410 PHE B 471 8ZB B 501 TAR B 502 SITE 13 AC1 49 HOH B 831 SITE 1 AC2 14 B12 A 201 ARG B 66 ALA B 67 GLY B 68 SITE 2 AC2 14 THR B 94 ASN B 123 LYS B 326 GLU B 330 SITE 3 AC2 14 ILE B 334 PRO B 335 TAR B 502 HOH B 760 SITE 4 AC2 14 HOH B 810 HOH B 895 SITE 1 AC3 12 B12 A 201 ARG B 66 THR B 94 ARG B 100 SITE 2 AC3 12 ARG B 149 HIS B 150 GLU B 171 TYR B 177 SITE 3 AC3 12 TYR B 181 PHE B 216 8ZB B 501 HOH B 769 SITE 1 AC4 51 SER C 13 ASP C 14 CYS C 15 HIS C 16 SITE 2 AC4 51 ALA C 17 VAL C 18 GLY C 19 LEU C 23 SITE 3 AC4 51 SER C 61 LEU C 63 TYR C 64 GLY C 65 SITE 4 AC4 51 GLY C 91 GLY C 92 ASN C 93 VAL C 95 SITE 5 AC4 51 VAL C 96 GLY C 97 TYR C 117 THR C 121 SITE 6 AC4 51 PRO C 123 HOH C 301 HOH C 305 HOH C 310 SITE 7 AC4 51 HOH C 312 HOH C 319 HOH C 340 HOH C 360 SITE 8 AC4 51 ILE D 95 ALA D 97 ARG D 100 ASN D 123 SITE 9 AC4 51 PRO D 180 TYR D 181 LEU D 219 THR D 220 SITE 10 AC4 51 MET D 294 GLY D 295 GLY D 296 PHE D 297 SITE 11 AC4 51 HIS D 329 GLU D 330 ALA D 331 GLY D 333 SITE 12 AC4 51 ILE D 334 PRO D 410 PHE D 471 8ZB D 501 SITE 13 AC4 51 TAR D 502 HOH D 776 HOH D 790 SITE 1 AC5 14 B12 C 201 ARG D 66 ALA D 67 GLY D 68 SITE 2 AC5 14 THR D 94 ASN D 123 LYS D 326 GLU D 330 SITE 3 AC5 14 ILE D 334 PRO D 335 TAR D 502 HOH D 698 SITE 4 AC5 14 HOH D 740 HOH D 932 SITE 1 AC6 12 B12 C 201 ARG D 66 THR D 94 ARG D 100 SITE 2 AC6 12 ARG D 149 HIS D 150 GLU D 171 TYR D 177 SITE 3 AC6 12 TYR D 181 PHE D 216 8ZB D 501 HOH D 696 CRYST1 63.749 112.286 108.010 90.00 95.71 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 0.015687 0.000000 0.001569 0.00000 SCALE2 0.000000 0.008906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009305 0.00000