HEADER OXIDOREDUCTASE 28-JAN-05 1VR3 TITLE CRYSTAL STRUCTURE OF ACIREDUCTONE DIOXYGENASE (13543033) FROM MUS TITLE 2 MUSCULUS AT 2.06 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACIREDUCTONE DIOXYGENASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.13.11.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS 13543033, ACIREDUCTONE DIOXYGENASE, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 20-NOV-24 1VR3 1 REMARK REVDAT 5 25-JAN-23 1VR3 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 1VR3 1 VERSN REVDAT 3 24-FEB-09 1VR3 1 VERSN REVDAT 2 03-OCT-06 1VR3 1 JRNL REVDAT 1 15-FEB-05 1VR3 0 JRNL AUTH Q.XU,R.SCHWARZENBACHER,S.S.KRISHNA,D.MCMULLAN,S.AGARWALLA, JRNL AUTH 2 K.QUIJANO,P.ABDUBEK,E.AMBING,H.AXELROD,T.BIORAC,J.M.CANAVES, JRNL AUTH 3 H.J.CHIU,M.A.ELSLIGER,C.GRITTINI,S.K.GRZECHNIK,M.DIDONATO, JRNL AUTH 4 J.HALE,E.HAMPTON,G.W.HAN,J.HAUGEN,M.HORNSBY,L.JAROSZEWSKI, JRNL AUTH 5 H.E.KLOCK,M.W.KNUTH,E.KOESEMA,A.KREUSCH,P.KUHN,M.D.MILLER, JRNL AUTH 6 K.MOY,E.NIGOGHOSSIAN,J.PAULSEN,R.REYES,C.RIFE,G.SPRAGGON, JRNL AUTH 7 R.C.STEVENS,H.VAN DEN BEDEM,J.VELASQUEZ,A.WHITE,G.WOLF, JRNL AUTH 8 K.O.HODGSON,J.WOOLEY,A.M.DEACON,A.GODZIK,S.A.LESLEY, JRNL AUTH 9 I.A.WILSON JRNL TITL CRYSTAL STRUCTURE OF ACIREDUCTONE DIOXYGENASE (ARD) FROM MUS JRNL TITL 2 MUSCULUS AT 2.06 ANGSTROM RESOLUTION. JRNL REF PROTEINS V. 64 808 2006 JRNL REFN ISSN 0887-3585 JRNL PMID 16783794 JRNL DOI 10.1002/PROT.20947 REMARK 2 REMARK 2 RESOLUTION. 2.06 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21908 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1183 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1585 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.2910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1484 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 169 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 43.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.48000 REMARK 3 B22 (A**2) : -0.48000 REMARK 3 B33 (A**2) : 0.96000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.439 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1583 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1421 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2143 ; 1.436 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3295 ; 0.799 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 178 ; 6.425 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 88 ;35.216 ;23.182 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 284 ;13.935 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;11.433 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 221 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1729 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 346 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 293 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1423 ; 0.196 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 758 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 919 ; 0.085 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 140 ; 0.202 ; 0.200 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): 6 ; 0.107 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 24 ; 0.250 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.153 ; 0.200 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): 940 ; 2.887 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 357 ; 0.600 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1479 ; 3.504 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 761 ; 6.033 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 664 ; 8.382 ;11.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 179 REMARK 3 ORIGIN FOR THE GROUP (A): 45.8160 14.8274 49.5691 REMARK 3 T TENSOR REMARK 3 T11: -0.1005 T22: -0.0814 REMARK 3 T33: -0.0741 T12: 0.0133 REMARK 3 T13: 0.0167 T23: -0.0269 REMARK 3 L TENSOR REMARK 3 L11: 2.4355 L22: 0.8176 REMARK 3 L33: 1.8039 L12: -0.1448 REMARK 3 L13: -1.1836 L23: 0.2589 REMARK 3 S TENSOR REMARK 3 S11: 0.0030 S12: -0.0569 S13: -0.0636 REMARK 3 S21: 0.0065 S22: 0.0336 S23: -0.0037 REMARK 3 S31: -0.0112 S32: 0.1229 S33: -0.0366 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS 2. THE IDENTITY OF THE METAL BOUND IS UNKNOWN. REMARK 3 IT WAS TENTATIVELY ASSIGNED AS A NICKLE. BASED ON INFORMATION OF REMARK 3 HOMOLOGOUS PROTEINS, IT COULD BE NI2+ OR FE2+. HOWEVER, IT COULD REMARK 3 BE ALSO OTHER METALS. 3. SUSPICIOUS DENSITIES: NEAR THR11, IT REMARK 3 WAS MODELLED AS A WATER WAT136; ANOTHER DENSITY IN THE ACTIVE REMARK 3 SITE WAS MODELLED AS UNKNOWN LIGAND, UNL. THE UNL INTERACTS WITH REMARK 3 THE UNKNOWN METAL. REMARK 4 REMARK 4 1VR3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1000002075. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979735,0.979562,0.956885 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111) REMARK 200 OPTICS : FIXED-HEIGHT EXIT BEAM, TOROIDAL REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, SCALA 5.0), CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23148 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.060 REMARK 200 RESOLUTION RANGE LOW (A) : 28.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.86400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5.0% GLYCEROL, 19.0% ISO-PROPANOL, REMARK 280 19.0% PEG-4000, 0.1M CITRATE PH 5.6, VAPOR DIFFUSION,SITTING REMARK 280 DROP,NANODROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 57.06400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 39.56800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 39.56800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.53200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 39.56800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 39.56800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 85.59600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 39.56800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 39.56800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.53200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 39.56800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 39.56800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 85.59600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 57.06400 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 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 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 MSE A -11 REMARK 465 GLY A -10 REMARK 465 SER A -9 REMARK 465 ASP A -8 REMARK 465 LYS A -7 REMARK 465 ILE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 MSE A 1 CG SE CE REMARK 470 GLN A 3 OE1 NE2 REMARK 470 LYS A 16 CE NZ REMARK 470 GLU A 29 CD OE1 OE2 REMARK 470 GLU A 53 OE1 OE2 REMARK 470 ILE A 67 CD1 REMARK 470 LYS A 71 CD CE NZ REMARK 470 GLU A 79 CD OE1 OE2 REMARK 470 LYS A 80 CD CE NZ REMARK 470 LYS A 82 CD CE NZ REMARK 470 GLU A 111 CD OE1 OE2 REMARK 470 LYS A 113 CE NZ REMARK 470 LYS A 140 NZ 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 OD1 ASN A 60 O2 IPA A 202 2.13 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 ASP A 13 73.99 50.35 REMARK 500 ASN A 48 80.63 -154.04 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 NI A 200 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 88 NE2 REMARK 620 2 HIS A 90 NE2 96.0 REMARK 620 3 GLU A 94 OE1 177.2 81.4 REMARK 620 4 HIS A 133 NE2 90.2 107.7 91.6 REMARK 620 5 UNL A 201 O1 93.1 86.2 85.7 165.4 REMARK 620 6 UNL A 201 O6 95.3 156.3 86.7 93.0 72.5 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 NI A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UNL A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 354741 RELATED DB: TARGETDB DBREF 1VR3 A 1 179 UNP Q99JT9 MTND_MOUSE 1 179 SEQADV 1VR3 MSE A -11 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 GLY A -10 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 SER A -9 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 ASP A -8 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 LYS A -7 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 ILE A -6 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A -5 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A -4 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A -3 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A -2 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A -1 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 HIS A 0 UNP Q99JT9 EXPRESSION TAG SEQADV 1VR3 MSE A 1 UNP Q99JT9 MET 1 MODIFIED RESIDUE SEQADV 1VR3 MSE A 7 UNP Q99JT9 MET 7 MODIFIED RESIDUE SEQADV 1VR3 MSE A 58 UNP Q99JT9 MET 58 MODIFIED RESIDUE SEQADV 1VR3 MSE A 64 UNP Q99JT9 MET 64 MODIFIED RESIDUE SEQADV 1VR3 MSE A 83 UNP Q99JT9 MET 83 MODIFIED RESIDUE SEQADV 1VR3 MSE A 119 UNP Q99JT9 MET 119 MODIFIED RESIDUE SEQADV 1VR3 MSE A 124 UNP Q99JT9 MET 124 MODIFIED RESIDUE SEQADV 1VR3 MSE A 146 UNP Q99JT9 MET 146 MODIFIED RESIDUE SEQADV 1VR3 MSE A 172 UNP Q99JT9 MET 172 MODIFIED RESIDUE SEQRES 1 A 191 MSE GLY SER ASP LYS ILE HIS HIS HIS HIS HIS HIS MSE SEQRES 2 A 191 VAL GLN ALA TRP TYR MSE ASP GLU SER THR ALA ASP PRO SEQRES 3 A 191 ARG LYS PRO HIS ARG ALA GLN PRO ASP ARG PRO VAL SER SEQRES 4 A 191 LEU GLU GLN LEU ARG THR LEU GLY VAL LEU TYR TRP LYS SEQRES 5 A 191 LEU ASP ALA ASP LYS TYR GLU ASN ASP PRO GLU LEU GLU SEQRES 6 A 191 LYS ILE ARG LYS MSE ARG ASN TYR SER TRP MSE ASP ILE SEQRES 7 A 191 ILE THR ILE CYS LYS ASP THR LEU PRO ASN TYR GLU GLU SEQRES 8 A 191 LYS ILE LYS MSE PHE PHE GLU GLU HIS LEU HIS LEU ASP SEQRES 9 A 191 GLU GLU ILE ARG TYR ILE LEU GLU GLY SER GLY TYR PHE SEQRES 10 A 191 ASP VAL ARG ASP LYS GLU ASP LYS TRP ILE ARG ILE SER SEQRES 11 A 191 MSE GLU LYS GLY ASP MSE ILE THR LEU PRO ALA GLY ILE SEQRES 12 A 191 TYR HIS ARG PHE THR LEU ASP GLU LYS ASN TYR VAL LYS SEQRES 13 A 191 ALA MSE ARG LEU PHE VAL GLY GLU PRO VAL TRP THR PRO SEQRES 14 A 191 TYR ASN ARG PRO ALA ASP HIS PHE ASP ALA ARG VAL GLN SEQRES 15 A 191 TYR MSE SER PHE LEU GLU GLY THR ALA MODRES 1VR3 MSE A 1 MET SELENOMETHIONINE MODRES 1VR3 MSE A 7 MET SELENOMETHIONINE MODRES 1VR3 MSE A 58 MET SELENOMETHIONINE MODRES 1VR3 MSE A 64 MET SELENOMETHIONINE MODRES 1VR3 MSE A 83 MET SELENOMETHIONINE MODRES 1VR3 MSE A 119 MET SELENOMETHIONINE MODRES 1VR3 MSE A 124 MET SELENOMETHIONINE MODRES 1VR3 MSE A 146 MET SELENOMETHIONINE MODRES 1VR3 MSE A 172 MET SELENOMETHIONINE HET MSE A 1 5 HET MSE A 7 8 HET MSE A 58 8 HET MSE A 64 8 HET MSE A 83 8 HET MSE A 119 8 HET MSE A 124 8 HET MSE A 146 8 HET MSE A 172 8 HET NI A 200 1 HET UNL A 201 9 HET IPA A 202 4 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION HETNAM UNL UNKNOWN LIGAND HETNAM IPA ISOPROPYL ALCOHOL HETSYN IPA 2-PROPANOL FORMUL 1 MSE 9(C5 H11 N O2 SE) FORMUL 2 NI NI 2+ FORMUL 4 IPA C3 H8 O FORMUL 5 HOH *169(H2 O) HELIX 1 1 SER A 27 LEU A 34 1 8 HELIX 2 2 ASP A 42 TYR A 46 5 5 HELIX 3 3 ASP A 49 ASN A 60 1 12 HELIX 4 4 ASN A 76 GLU A 86 1 11 HELIX 5 5 PHE A 165 THR A 178 1 14 SHEET 1 A 5 GLN A 3 TYR A 6 0 SHEET 2 A 5 TRP A 114 GLU A 120 -1 O ARG A 116 N TRP A 5 SHEET 3 A 5 GLU A 94 ARG A 108 -1 N VAL A 107 O ILE A 115 SHEET 4 A 5 VAL A 143 PHE A 149 -1 O MSE A 146 N TYR A 97 SHEET 5 A 5 TRP A 63 ILE A 69 -1 N ILE A 69 O VAL A 143 SHEET 1 B 4 LEU A 37 LYS A 40 0 SHEET 2 B 4 ASP A 123 LEU A 127 -1 O MSE A 124 N TRP A 39 SHEET 3 B 4 GLU A 94 ARG A 108 -1 N ARG A 96 O ILE A 125 SHEET 4 B 4 HIS A 133 LEU A 137 -1 O THR A 136 N TYR A 104 SHEET 1 C 2 HIS A 88 LEU A 89 0 SHEET 2 C 2 TYR A 158 ASN A 159 -1 O TYR A 158 N LEU A 89 LINK C MSE A 1 N VAL A 2 1555 1555 1.34 LINK C TYR A 6 N MSE A 7 1555 1555 1.32 LINK C MSE A 7 N ASP A 8 1555 1555 1.32 LINK C LYS A 57 N MSE A 58 1555 1555 1.32 LINK C MSE A 58 N ARG A 59 1555 1555 1.32 LINK C TRP A 63 N MSE A 64 1555 1555 1.34 LINK C MSE A 64 N ASP A 65 1555 1555 1.33 LINK C LYS A 82 N MSE A 83 1555 1555 1.32 LINK C MSE A 83 N PHE A 84 1555 1555 1.33 LINK C SER A 118 N MSE A 119 1555 1555 1.33 LINK C MSE A 119 N GLU A 120 1555 1555 1.33 LINK C ASP A 123 N MSE A 124 1555 1555 1.33 LINK C MSE A 124 N ILE A 125 1555 1555 1.32 LINK C ALA A 145 N MSE A 146 1555 1555 1.32 LINK C MSE A 146 N ARG A 147 1555 1555 1.33 LINK C TYR A 171 N MSE A 172 1555 1555 1.32 LINK C MSE A 172 N SER A 173 1555 1555 1.32 LINK NE2 HIS A 88 NI NI A 200 1555 1555 2.19 LINK NE2 HIS A 90 NI NI A 200 1555 1555 2.05 LINK OE1 GLU A 94 NI NI A 200 1555 1555 2.24 LINK NE2 HIS A 133 NI NI A 200 1555 1555 2.03 LINK NI NI A 200 O1 UNL A 201 1555 1555 2.25 LINK NI NI A 200 O6 UNL A 201 1555 1555 2.17 CISPEP 1 GLN A 21 PRO A 22 0 4.80 CISPEP 2 ARG A 160 PRO A 161 0 0.02 SITE 1 AC1 5 HIS A 88 HIS A 90 GLU A 94 HIS A 133 SITE 2 AC1 5 UNL A 201 SITE 1 AC2 10 PHE A 84 HIS A 88 HIS A 90 GLU A 94 SITE 2 AC2 10 ARG A 96 HIS A 133 ARG A 147 NI A 200 SITE 3 AC2 10 HOH A 235 HOH A 365 SITE 1 AC3 4 LYS A 57 ASN A 60 ARG A 108 HOH A 317 CRYST1 79.136 79.136 114.128 90.00 90.00 90.00 P 41 21 2 8 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 0.012636 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012636 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008762 0.00000 HETATM 1 N MSE A 1 59.736 7.218 56.937 1.00 79.65 N HETATM 2 CA MSE A 1 58.554 6.685 56.169 1.00 80.23 C HETATM 3 C MSE A 1 57.242 7.481 56.462 1.00 78.03 C HETATM 4 O MSE A 1 57.024 7.970 57.591 1.00 77.73 O HETATM 5 CB MSE A 1 58.354 5.181 56.445 1.00 80.54 C