HEADER OXIDOREDUCTASE 28-MAR-13 4JY2 TITLE CRYSTAL STRUCTURE OF 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID TITLE 2 OXYGENASE, NATIVE AND UNLIGANDED FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC ACID OXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.14.12.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MESORHIZOBIUM LOTI; SOURCE 3 ORGANISM_TAXID: 266835; SOURCE 4 STRAIN: MAFF303099; SOURCE 5 GENE: MLR6788; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS FLAVOENZYME, FAD BINDING MOTIF, OXIDOREDUCTASE, 3-HYDROXYPYRIDINE-5- KEYWDS 2 CARBOXYLIC ACID EXPDTA X-RAY DIFFRACTION AUTHOR J.KOBAYASHI,H.YOSHIDA,S.KAMITORI,H.HAYASHI,K.MIZUTANI,N.TAKAHASHI, AUTHOR 2 B.MIKAMI,T.YAGI REVDAT 1 02-APR-14 4JY2 0 SPRSDE 02-APR-14 4JY2 3ALH JRNL AUTH J.KOBAYASHI,H.YOSHIDA,S.KAMITORI,H.HAYASHI,K.MIZUTANI, JRNL AUTH 2 N.TAKAHASHI,B.MIKAMI,T.YAGI JRNL TITL CRYSTAL STRUCTURE OF 2-METHYL-3-HYDROXYPYRIDINE-5-CARBOXYLIC JRNL TITL 2 ACID OXYGENASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 78588 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 3955 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 49.0825 - 5.8724 1.00 2726 150 0.1765 0.1845 REMARK 3 2 5.8724 - 4.6622 1.00 2691 143 0.1490 0.1815 REMARK 3 3 4.6622 - 4.0732 1.00 2687 143 0.1412 0.1646 REMARK 3 4 4.0732 - 3.7010 1.00 2690 124 0.1526 0.1890 REMARK 3 5 3.7010 - 3.4358 1.00 2685 136 0.1597 0.1735 REMARK 3 6 3.4358 - 3.2332 1.00 2702 143 0.1670 0.1953 REMARK 3 7 3.2332 - 3.0713 1.00 2669 137 0.1754 0.2099 REMARK 3 8 3.0713 - 2.9377 1.00 2660 146 0.1730 0.2037 REMARK 3 9 2.9377 - 2.8246 1.00 2686 144 0.1808 0.2208 REMARK 3 10 2.8246 - 2.7271 1.00 2676 142 0.1764 0.2000 REMARK 3 11 2.7271 - 2.6419 1.00 2684 146 0.1732 0.2095 REMARK 3 12 2.6419 - 2.5663 1.00 2629 140 0.1717 0.2145 REMARK 3 13 2.5663 - 2.4988 1.00 2678 154 0.1762 0.2017 REMARK 3 14 2.4988 - 2.4378 1.00 2663 151 0.1710 0.2207 REMARK 3 15 2.4378 - 2.3824 1.00 2694 133 0.1676 0.1874 REMARK 3 16 2.3824 - 2.3317 1.00 2684 142 0.1643 0.2020 REMARK 3 17 2.3317 - 2.2851 1.00 2640 119 0.1650 0.2076 REMARK 3 18 2.2851 - 2.2419 1.00 2699 131 0.1645 0.2079 REMARK 3 19 2.2419 - 2.2019 1.00 2641 165 0.1657 0.2051 REMARK 3 20 2.2019 - 2.1646 1.00 2653 142 0.1649 0.2275 REMARK 3 21 2.1646 - 2.1297 1.00 2629 154 0.1761 0.2257 REMARK 3 22 2.1297 - 2.0969 1.00 2717 145 0.1747 0.2025 REMARK 3 23 2.0969 - 2.0661 1.00 2649 160 0.1766 0.2504 REMARK 3 24 2.0661 - 2.0370 1.00 2667 119 0.1815 0.2004 REMARK 3 25 2.0370 - 2.0094 1.00 2696 134 0.1838 0.2206 REMARK 3 26 2.0094 - 1.9833 1.00 2617 143 0.1845 0.2013 REMARK 3 27 1.9833 - 1.9585 1.00 2673 140 0.1913 0.2644 REMARK 3 28 1.9585 - 1.9349 0.92 2448 129 0.1958 0.2443 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.640 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.81 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.93 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 6177 REMARK 3 ANGLE : 1.416 8405 REMARK 3 CHIRALITY : 0.080 905 REMARK 3 PLANARITY : 0.005 1066 REMARK 3 DIHEDRAL : 13.346 2271 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 4JY2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-APR-13. REMARK 100 THE RCSB ID CODE IS RCSB078648. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAY-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78611 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.935 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 : 3.800 REMARK 200 R MERGE (I) : 0.09900 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) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.30800 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.88 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL PH 8.5, 8% PEG 8000, REMARK 280 VAPOR DIFFUSION, 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 55.36900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 64.68200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 55.36900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 64.68200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: BIOLOGICAL UNIT IS TETRAMER, BUT SPECIFIC INTERACTION FOR REMARK 300 FORMING TETRAMER IS NOT OBSERVED. 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 529 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 713 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 714 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 710 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 711 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 712 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 ASN A 3 REMARK 465 VAL A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 REMARK 465 THR A 7 REMARK 465 PRO A 8 REMARK 465 GLY A 9 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 ASN B 3 REMARK 465 VAL B 4 REMARK 465 ASN B 5 REMARK 465 LYS B 6 REMARK 465 THR B 7 REMARK 465 PRO B 8 REMARK 465 GLY B 9 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 OE2 GLU A 41 O3B FAD A 401 2.18 REMARK 500 OE1 GLU B 41 O3B FAD B 401 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 ALA A 51 -77.77 69.54 REMARK 500 SER A 160 111.30 -37.01 REMARK 500 GLU A 195 70.21 -117.14 REMARK 500 ASN A 218 -172.63 177.01 REMARK 500 HIS A 291 36.91 -152.71 REMARK 500 ALA B 51 -78.34 70.65 REMARK 500 GLU B 195 70.68 -116.94 REMARK 500 ASN B 218 -170.42 179.90 REMARK 500 HIS B 291 38.91 -151.57 REMARK 500 TRP B 377 66.17 39.96 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 407 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4JY3 RELATED DB: PDB REMARK 900 5-PYRIDOXIC ACID BOUND FORM DBREF 4JY2 A 1 379 UNP Q988D3 Q988D3_RHILO 1 379 DBREF 4JY2 B 1 379 UNP Q988D3 Q988D3_RHILO 1 379 SEQRES 1 A 379 MET ALA ASN VAL ASN LYS THR PRO GLY LYS THR ARG ARG SEQRES 2 A 379 ALA GLU VAL ALA GLY GLY GLY PHE ALA GLY LEU THR ALA SEQRES 3 A 379 ALA ILE ALA LEU LYS GLN ASN GLY TRP ASP VAL ARG LEU SEQRES 4 A 379 HIS GLU LYS SER SER GLU LEU ARG ALA PHE GLY ALA GLY SEQRES 5 A 379 ILE TYR LEU TRP HIS ASN GLY LEU ARG VAL LEU GLU GLY SEQRES 6 A 379 LEU GLY ALA LEU ASP ASP VAL LEU GLN GLY SER HIS THR SEQRES 7 A 379 PRO PRO THR TYR GLU THR TRP MET HIS ASN LYS SER VAL SEQRES 8 A 379 SER LYS GLU THR PHE ASN GLY LEU PRO TRP ARG ILE MET SEQRES 9 A 379 THR ARG SER HIS LEU HIS ASP ALA LEU VAL ASN ARG ALA SEQRES 10 A 379 ARG ALA LEU GLY VAL ASP ILE SER VAL ASN SER GLU ALA SEQRES 11 A 379 VAL ALA ALA ASP PRO VAL GLY ARG LEU THR LEU GLN THR SEQRES 12 A 379 GLY GLU VAL LEU GLU ALA ASP LEU ILE VAL GLY ALA ASP SEQRES 13 A 379 GLY VAL GLY SER LYS VAL ARG ASP SER ILE GLY PHE LYS SEQRES 14 A 379 GLN ASP ARG TRP VAL SER LYS ASP GLY LEU ILE ARG LEU SEQRES 15 A 379 ILE VAL PRO ARG MET LYS LYS GLU LEU GLY HIS GLY GLU SEQRES 16 A 379 TRP ASP ASN THR ILE ASP MET TRP ASN PHE TRP PRO ARG SEQRES 17 A 379 VAL GLN ARG ILE LEU TYR SER PRO CYS ASN GLU ASN GLU SEQRES 18 A 379 LEU TYR LEU GLY LEU MET ALA PRO ALA ALA ASP PRO ARG SEQRES 19 A 379 GLY SER SER VAL PRO ILE ASP LEU GLU VAL TRP VAL GLU SEQRES 20 A 379 MET PHE PRO PHE LEU GLU PRO CYS LEU ILE GLU ALA ALA SEQRES 21 A 379 LYS LEU LYS THR ALA ARG TYR ASP LYS TYR GLU THR THR SEQRES 22 A 379 LYS LEU ASP SER TRP THR ARG GLY LYS VAL ALA LEU VAL SEQRES 23 A 379 GLY ASP ALA ALA HIS ALA MET CYS PRO ALA LEU ALA GLN SEQRES 24 A 379 GLY ALA GLY CYS ALA MET VAL ASN ALA PHE SER LEU SER SEQRES 25 A 379 GLN ASP LEU GLU GLU GLY SER SER VAL GLU ASP ALA LEU SEQRES 26 A 379 VAL ALA TRP GLU THR ARG ILE ARG PRO ILE THR ASP ARG SEQRES 27 A 379 CYS GLN ALA LEU SER GLY ASP TYR ALA ALA ASN ARG SER SEQRES 28 A 379 LEU SER LYS GLY ASN MET PHE THR PRO ALA ALA LEU GLU SEQRES 29 A 379 ALA ALA ARG TYR ASP PRO LEU ARG ARG VAL TYR SER TRP SEQRES 30 A 379 PRO GLN SEQRES 1 B 379 MET ALA ASN VAL ASN LYS THR PRO GLY LYS THR ARG ARG SEQRES 2 B 379 ALA GLU VAL ALA GLY GLY GLY PHE ALA GLY LEU THR ALA SEQRES 3 B 379 ALA ILE ALA LEU LYS GLN ASN GLY TRP ASP VAL ARG LEU SEQRES 4 B 379 HIS GLU LYS SER SER GLU LEU ARG ALA PHE GLY ALA GLY SEQRES 5 B 379 ILE TYR LEU TRP HIS ASN GLY LEU ARG VAL LEU GLU GLY SEQRES 6 B 379 LEU GLY ALA LEU ASP ASP VAL LEU GLN GLY SER HIS THR SEQRES 7 B 379 PRO PRO THR TYR GLU THR TRP MET HIS ASN LYS SER VAL SEQRES 8 B 379 SER LYS GLU THR PHE ASN GLY LEU PRO TRP ARG ILE MET SEQRES 9 B 379 THR ARG SER HIS LEU HIS ASP ALA LEU VAL ASN ARG ALA SEQRES 10 B 379 ARG ALA LEU GLY VAL ASP ILE SER VAL ASN SER GLU ALA SEQRES 11 B 379 VAL ALA ALA ASP PRO VAL GLY ARG LEU THR LEU GLN THR SEQRES 12 B 379 GLY GLU VAL LEU GLU ALA ASP LEU ILE VAL GLY ALA ASP SEQRES 13 B 379 GLY VAL GLY SER LYS VAL ARG ASP SER ILE GLY PHE LYS SEQRES 14 B 379 GLN ASP ARG TRP VAL SER LYS ASP GLY LEU ILE ARG LEU SEQRES 15 B 379 ILE VAL PRO ARG MET LYS LYS GLU LEU GLY HIS GLY GLU SEQRES 16 B 379 TRP ASP ASN THR ILE ASP MET TRP ASN PHE TRP PRO ARG SEQRES 17 B 379 VAL GLN ARG ILE LEU TYR SER PRO CYS ASN GLU ASN GLU SEQRES 18 B 379 LEU TYR LEU GLY LEU MET ALA PRO ALA ALA ASP PRO ARG SEQRES 19 B 379 GLY SER SER VAL PRO ILE ASP LEU GLU VAL TRP VAL GLU SEQRES 20 B 379 MET PHE PRO PHE LEU GLU PRO CYS LEU ILE GLU ALA ALA SEQRES 21 B 379 LYS LEU LYS THR ALA ARG TYR ASP LYS TYR GLU THR THR SEQRES 22 B 379 LYS LEU ASP SER TRP THR ARG GLY LYS VAL ALA LEU VAL SEQRES 23 B 379 GLY ASP ALA ALA HIS ALA MET CYS PRO ALA LEU ALA GLN SEQRES 24 B 379 GLY ALA GLY CYS ALA MET VAL ASN ALA PHE SER LEU SER SEQRES 25 B 379 GLN ASP LEU GLU GLU GLY SER SER VAL GLU ASP ALA LEU SEQRES 26 B 379 VAL ALA TRP GLU THR ARG ILE ARG PRO ILE THR ASP ARG SEQRES 27 B 379 CYS GLN ALA LEU SER GLY ASP TYR ALA ALA ASN ARG SER SEQRES 28 B 379 LEU SER LYS GLY ASN MET PHE THR PRO ALA ALA LEU GLU SEQRES 29 B 379 ALA ALA ARG TYR ASP PRO LEU ARG ARG VAL TYR SER TRP SEQRES 30 B 379 PRO GLN HET FAD A 401 53 HET BME A 402 4 HET GOL A 403 6 HET GOL A 404 6 HET GOL A 405 6 HET GOL A 406 6 HET GOL A 407 6 HET GOL A 408 6 HET FAD B 401 53 HET BME B 402 4 HET GOL B 403 12 HET GOL B 404 6 HET GOL B 405 6 HET GOL B 406 6 HET GOL B 407 6 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM BME BETA-MERCAPTOETHANOL HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 FAD 2(C27 H33 N9 O15 P2) FORMUL 4 BME 2(C2 H6 O S) FORMUL 5 GOL 11(C3 H8 O3) FORMUL 18 HOH *637(H2 O) HELIX 1 1 GLY A 20 ASN A 33 1 14 HELIX 2 2 HIS A 57 LEU A 66 1 10 HELIX 3 3 ALA A 68 GLN A 74 1 7 HELIX 4 4 THR A 95 LEU A 99 5 5 HELIX 5 5 ARG A 106 LEU A 120 1 15 HELIX 6 6 SER A 160 GLY A 167 1 8 HELIX 7 7 LYS A 188 GLY A 192 5 5 HELIX 8 8 ASP A 241 PHE A 249 1 9 HELIX 9 9 LEU A 252 ALA A 260 1 9 HELIX 10 10 GLY A 287 ALA A 292 1 6 HELIX 11 11 GLN A 299 LEU A 315 1 17 HELIX 12 12 SER A 320 ARG A 350 1 31 HELIX 13 13 SER A 351 GLY A 355 5 5 HELIX 14 14 LEU A 363 ARG A 367 1 5 HELIX 15 15 GLY B 20 ASN B 33 1 14 HELIX 16 16 HIS B 57 LEU B 66 1 10 HELIX 17 17 ALA B 68 GLN B 74 1 7 HELIX 18 18 THR B 95 LEU B 99 5 5 HELIX 19 19 ARG B 106 LEU B 120 1 15 HELIX 20 20 SER B 160 SER B 165 1 6 HELIX 21 21 LYS B 188 GLY B 192 5 5 HELIX 22 22 ASP B 241 PHE B 249 1 9 HELIX 23 23 LEU B 252 ALA B 260 1 9 HELIX 24 24 GLY B 287 ALA B 292 1 6 HELIX 25 25 GLN B 299 LEU B 315 1 17 HELIX 26 26 SER B 320 ARG B 350 1 31 HELIX 27 27 SER B 351 GLY B 355 5 5 HELIX 28 28 LEU B 363 ARG B 367 1 5 SHEET 1 A 6 ASP A 123 SER A 125 0 SHEET 2 A 6 ASP A 36 HIS A 40 1 N LEU A 39 O ASP A 123 SHEET 3 A 6 ARG A 13 ALA A 17 1 N VAL A 16 O HIS A 40 SHEET 4 A 6 LEU A 151 GLY A 154 1 O VAL A 153 N ALA A 17 SHEET 5 A 6 VAL A 283 LEU A 285 1 O ALA A 284 N GLY A 154 SHEET 6 A 6 THR A 279 ARG A 280 -1 N ARG A 280 O VAL A 283 SHEET 1 B 2 GLY A 52 TRP A 56 0 SHEET 2 B 2 TRP A 101 THR A 105 -1 O ARG A 102 N LEU A 55 SHEET 1 C 7 LYS A 89 GLU A 94 0 SHEET 2 C 7 TYR A 82 MET A 86 -1 N THR A 84 O VAL A 91 SHEET 3 C 7 THR A 199 TRP A 203 1 O ASP A 201 N TRP A 85 SHEET 4 C 7 ARG A 211 PRO A 216 -1 O ILE A 212 N MET A 202 SHEET 5 C 7 GLU A 221 ALA A 228 -1 O MET A 227 N ARG A 211 SHEET 6 C 7 GLY A 178 PRO A 185 -1 N VAL A 184 O LEU A 222 SHEET 7 C 7 TYR A 267 ASP A 268 -1 O ASP A 268 N LEU A 179 SHEET 1 D 3 ALA A 130 ASP A 134 0 SHEET 2 D 3 ARG A 138 LEU A 141 -1 O ARG A 138 N ASP A 134 SHEET 3 D 3 VAL A 146 GLU A 148 -1 O LEU A 147 N LEU A 139 SHEET 1 E 2 GLN A 170 VAL A 174 0 SHEET 2 E 2 GLU A 271 LEU A 275 -1 O LYS A 274 N ASP A 171 SHEET 1 F 2 TYR A 368 ASP A 369 0 SHEET 2 F 2 VAL A 374 TYR A 375 -1 O VAL A 374 N ASP A 369 SHEET 1 G 6 ASP B 123 SER B 125 0 SHEET 2 G 6 ASP B 36 HIS B 40 1 N LEU B 39 O ASP B 123 SHEET 3 G 6 ARG B 13 ALA B 17 1 N VAL B 16 O HIS B 40 SHEET 4 G 6 LEU B 151 GLY B 154 1 O VAL B 153 N ALA B 17 SHEET 5 G 6 VAL B 283 LEU B 285 1 O ALA B 284 N GLY B 154 SHEET 6 G 6 THR B 279 ARG B 280 -1 N ARG B 280 O VAL B 283 SHEET 1 H 2 GLY B 52 TRP B 56 0 SHEET 2 H 2 TRP B 101 THR B 105 -1 O MET B 104 N ILE B 53 SHEET 1 I 7 LYS B 89 GLU B 94 0 SHEET 2 I 7 TYR B 82 MET B 86 -1 N THR B 84 O VAL B 91 SHEET 3 I 7 THR B 199 TRP B 203 1 O THR B 199 N GLU B 83 SHEET 4 I 7 ARG B 211 PRO B 216 -1 O ILE B 212 N MET B 202 SHEET 5 I 7 GLU B 221 ALA B 228 -1 O MET B 227 N ARG B 211 SHEET 6 I 7 GLY B 178 PRO B 185 -1 N ILE B 180 O LEU B 226 SHEET 7 I 7 TYR B 267 ASP B 268 -1 O ASP B 268 N LEU B 179 SHEET 1 J 3 ALA B 130 ASP B 134 0 SHEET 2 J 3 ARG B 138 LEU B 141 -1 O THR B 140 N ALA B 132 SHEET 3 J 3 VAL B 146 GLU B 148 -1 O LEU B 147 N LEU B 139 SHEET 1 K 2 GLN B 170 VAL B 174 0 SHEET 2 K 2 GLU B 271 LEU B 275 -1 O LYS B 274 N ASP B 171 SHEET 1 L 2 TYR B 368 ASP B 369 0 SHEET 2 L 2 VAL B 374 TYR B 375 -1 O VAL B 374 N ASP B 369 LINK SG CYS A 294 S2 BME A 402 1555 1555 1.98 LINK SG CYS B 294 S2 BME B 402 1555 1555 1.99 CISPEP 1 TRP A 206 PRO A 207 0 1.54 CISPEP 2 VAL A 238 PRO A 239 0 -8.02 CISPEP 3 TRP B 206 PRO B 207 0 1.44 CISPEP 4 VAL B 238 PRO B 239 0 -5.50 SITE 1 AC1 34 GLY A 18 GLY A 19 GLY A 20 PHE A 21 SITE 2 AC1 34 ALA A 22 HIS A 40 GLU A 41 LYS A 42 SITE 3 AC1 34 ILE A 53 TYR A 54 ARG A 106 SER A 128 SITE 4 AC1 34 GLU A 129 ALA A 130 ALA A 155 ASP A 156 SITE 5 AC1 34 LEU A 179 ARG A 181 GLY A 287 ASP A 288 SITE 6 AC1 34 ALA A 298 GLY A 300 ALA A 301 GLY A 302 SITE 7 AC1 34 HOH A 501 HOH A 522 HOH A 524 HOH A 553 SITE 8 AC1 34 HOH A 586 HOH A 594 HOH A 618 HOH A 629 SITE 9 AC1 34 HOH A 772 HOH A 775 SITE 1 AC2 6 TRP A 173 TYR A 270 THR A 272 CYS A 294 SITE 2 AC2 6 ALA A 347 HOH A 759 SITE 1 AC3 7 THR A 95 PHE A 96 ASN A 97 HOH A 576 SITE 2 AC3 7 HOH A 589 HOH A 642 HOH A 723 SITE 1 AC4 8 GLN A 74 GLY A 75 SER A 76 ASN A 97 SITE 2 AC4 8 PRO A 378 HOH A 509 HOH A 628 HOH A 745 SITE 1 AC5 3 GLU A 364 ARG A 367 TYR A 375 SITE 1 AC6 4 ASP A 36 VAL A 37 ARG A 38 HOH A 684 SITE 1 AC7 3 ALA A 231 ASP B 134 VAL B 136 SITE 1 AC8 8 TYR A 82 ARG A 211 PRO A 295 ALA A 296 SITE 2 AC8 8 ALA A 298 HOH A 594 HOH A 823 HOH A 824 SITE 1 AC9 36 GLY B 18 GLY B 19 GLY B 20 PHE B 21 SITE 2 AC9 36 ALA B 22 HIS B 40 GLU B 41 LYS B 42 SITE 3 AC9 36 ILE B 53 TYR B 54 ARG B 106 SER B 128 SITE 4 AC9 36 GLU B 129 ALA B 130 ALA B 155 ASP B 156 SITE 5 AC9 36 LEU B 179 ARG B 181 GLY B 287 ASP B 288 SITE 6 AC9 36 ALA B 298 GLY B 300 ALA B 301 GLY B 302 SITE 7 AC9 36 HOH B 501 HOH B 513 HOH B 554 HOH B 561 SITE 8 AC9 36 HOH B 568 HOH B 625 HOH B 640 HOH B 661 SITE 9 AC9 36 HOH B 707 HOH B 759 HOH B 762 HOH B 763 SITE 1 BC1 5 TRP B 173 TYR B 270 THR B 272 CYS B 294 SITE 2 BC1 5 ALA B 347 SITE 1 BC2 11 LEU B 73 GLN B 74 GLY B 75 SER B 76 SITE 2 BC2 11 ASN B 97 ARG B 102 PRO B 378 HOH B 540 SITE 3 BC2 11 HOH B 569 HOH B 663 HOH B 744 SITE 1 BC3 6 HOH A 530 LYS B 42 ASN B 127 GLU B 129 SITE 2 BC3 6 GLN B 142 HOH B 541 SITE 1 BC4 7 THR B 95 PHE B 96 ASN B 97 HOH B 598 SITE 2 BC4 7 HOH B 654 HOH B 666 HOH B 734 SITE 1 BC5 7 TRP B 203 ARG B 211 MET B 227 HOH B 567 SITE 2 BC5 7 HOH B 632 HOH B 677 HOH B 696 SITE 1 BC6 2 ARG B 367 TYR B 375 CRYST1 110.738 129.364 89.302 90.00 122.51 90.00 C 1 2 1 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 0.009030 0.000000 0.005755 0.00000 SCALE2 0.000000 0.007730 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013279 0.00000