HEADER LYASE 18-JUL-17 5OHX TITLE STRUCTURE OF ACTIVE CYSTATHIONINE B-SYNTHASE FROM APIS MELLIFERA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYSTATHIONINE BETA-SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: APIS MELLIFERA; SOURCE 3 ORGANISM_COMMON: HONEY BEE; SOURCE 4 ORGANISM_TAXID: 7460; SOURCE 5 GENE: AMCBS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CBS, TRANSSULFURATION, HYDROGEN SULFIDE, H2S, HOMOCYSTINURIA, S- KEYWDS 2 ADENOSYLMETHIONINE, ADOMET, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR P.GIMENEZ-MASCARELL,T.MAJTAN,I.OYENARTE,J.ERENO-ORBEA,J.MAJTAN, AUTHOR 2 J.P.KRAUS,J.KLAUDINY,L.A.MARTINEZ-CRUZ REVDAT 4 17-JAN-24 5OHX 1 REMARK REVDAT 3 09-OCT-19 5OHX 1 REMARK REVDAT 2 14-MAR-18 5OHX 1 JRNL REVDAT 1 03-JAN-18 5OHX 0 JRNL AUTH P.GIMENEZ-MASCARELL,T.MAJTAN,I.OYENARTE,J.ERENO-ORBEA, JRNL AUTH 2 J.MAJTAN,J.KLAUDINY,J.P.KRAUS,L.A.MARTINEZ-CRUZ JRNL TITL CRYSTAL STRUCTURE OF CYSTATHIONINE BETA-SYNTHASE FROM JRNL TITL 2 HONEYBEE APIS MELLIFERA. JRNL REF J. STRUCT. BIOL. V. 202 82 2018 JRNL REFN ESSN 1095-8657 JRNL PMID 29275181 JRNL DOI 10.1016/J.JSB.2017.12.008 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 25365 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1287 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 49.3659 - 6.6515 0.98 2797 146 0.1576 0.1755 REMARK 3 2 6.6515 - 5.2814 1.00 2715 142 0.1931 0.2223 REMARK 3 3 5.2814 - 4.6144 1.00 2686 142 0.1728 0.2094 REMARK 3 4 4.6144 - 4.1927 1.00 2678 131 0.1741 0.1982 REMARK 3 5 4.1927 - 3.8923 1.00 2655 148 0.1952 0.2290 REMARK 3 6 3.8923 - 3.6629 1.00 2643 155 0.2155 0.2535 REMARK 3 7 3.6629 - 3.4795 1.00 2637 145 0.2277 0.2691 REMARK 3 8 3.4795 - 3.3281 1.00 2632 142 0.2528 0.3440 REMARK 3 9 3.3281 - 3.2000 1.00 2635 136 0.2844 0.3043 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) : 0.410 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.210 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) : 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 : 0.003 7875 REMARK 3 ANGLE : 1.128 10696 REMARK 3 CHIRALITY : 0.046 1202 REMARK 3 PLANARITY : 0.005 1342 REMARK 3 DIHEDRAL : 9.379 4739 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 15.5378 -38.1071 -30.3865 REMARK 3 T TENSOR REMARK 3 T11: 0.3043 T22: 0.3869 REMARK 3 T33: 0.3169 T12: -0.0041 REMARK 3 T13: -0.0502 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 0.8819 L22: 1.1286 REMARK 3 L33: 1.8989 L12: 0.1764 REMARK 3 L13: 0.3636 L23: 0.6604 REMARK 3 S TENSOR REMARK 3 S11: 0.0998 S12: 0.1590 S13: -0.2104 REMARK 3 S21: -0.2367 S22: 0.0752 S23: -0.0500 REMARK 3 S31: 0.0208 S32: 0.2511 S33: -0.1399 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 5OHX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JUL-17. REMARK 100 THE DEPOSITION ID IS D_1200005823. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-OCT-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR-H REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.542 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25365 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 REMARK 200 RESOLUTION RANGE LOW (A) : 49.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.15400 REMARK 200 FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.30 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) : 0.69300 REMARK 200 FOR SHELL : 2.600 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: 3PC2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 6000, 100 MM HEPES PH 7.5, 5% REMARK 280 MPD, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 43.07150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.34200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.04950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 90.34200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.07150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.04950 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 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLU A 2 REMARK 465 PHE A 3 REMARK 465 LYS A 4 REMARK 465 SER A 252 REMARK 465 GLN A 253 REMARK 465 ASN A 254 REMARK 465 GLY A 496 REMARK 465 THR A 497 REMARK 465 SER A 498 REMARK 465 ASN A 499 REMARK 465 ASN A 500 REMARK 465 TYR A 501 REMARK 465 LEU A 502 REMARK 465 ILE A 503 REMARK 465 ASN A 504 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 PHE B 3 REMARK 465 LYS B 4 REMARK 465 SER B 252 REMARK 465 GLN B 253 REMARK 465 ASN B 254 REMARK 465 GLY B 496 REMARK 465 THR B 497 REMARK 465 SER B 498 REMARK 465 ASN B 499 REMARK 465 ASN B 500 REMARK 465 TYR B 501 REMARK 465 LEU B 502 REMARK 465 ILE B 503 REMARK 465 ASN B 504 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 MET A 128 CG SD CE REMARK 470 GLU A 130 CG CD OE1 OE2 REMARK 470 MET A 132 CG SD CE REMARK 470 GLU A 160 CG CD OE1 OE2 REMARK 470 ASP A 251 CG OD1 OD2 REMARK 470 GLU A 255 CG CD OE1 OE2 REMARK 470 ASP A 409 CG OD1 OD2 REMARK 470 GLU B 130 CG CD OE1 OE2 REMARK 470 LYS B 131 CG CD CE NZ REMARK 470 MET B 132 CG SD CE REMARK 470 GLU B 160 CG CD OE1 OE2 REMARK 470 GLU B 255 CG CD OE1 OE2 REMARK 470 ASP B 409 CG OD1 OD2 REMARK 470 PHE B 437 CG CD1 CD2 CE1 CE2 CZ 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 NZ LYS B 78 C4A PLP B 702 1.62 REMARK 500 CE LYS B 78 C4A PLP B 702 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OH TYR B 11 OD2 ASP B 472 3654 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 THR A 19 -72.19 -92.94 REMARK 500 ASN A 52 -62.71 -102.41 REMARK 500 GLU A 130 -138.48 48.77 REMARK 500 GLU A 135 -15.00 76.97 REMARK 500 ASP A 180 75.15 58.97 REMARK 500 GLN A 194 -63.10 -120.45 REMARK 500 SER A 250 -68.20 -129.53 REMARK 500 LYS A 342 -80.21 -111.06 REMARK 500 THR A 387 -64.21 -130.92 REMARK 500 ASN A 411 -4.36 67.19 REMARK 500 LYS A 464 -64.36 -106.34 REMARK 500 ILE A 480 -63.55 -109.25 REMARK 500 THR B 19 -72.43 -101.06 REMARK 500 GLU B 135 -14.51 84.29 REMARK 500 GLN B 194 -65.99 -123.25 REMARK 500 ASP B 208 -62.28 -120.31 REMARK 500 SER B 250 -69.28 -129.88 REMARK 500 LYS B 342 -80.52 -116.65 REMARK 500 ASN B 411 -4.99 66.85 REMARK 500 ILE B 412 -67.80 -120.30 REMARK 500 ILE B 480 -63.93 -107.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PLP B 702 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 HEM A 701 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 12 SG REMARK 620 2 HEM A 701 NA 91.8 REMARK 620 3 HEM A 701 NB 92.4 91.6 REMARK 620 4 HEM A 701 NC 86.6 178.2 89.3 REMARK 620 5 HEM A 701 ND 91.2 89.2 176.2 90.0 REMARK 620 6 HIS A 23 NE2 174.8 92.2 90.7 89.3 85.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 701 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 12 SG REMARK 620 2 HEM B 701 NA 94.0 REMARK 620 3 HEM B 701 NB 91.2 90.8 REMARK 620 4 HEM B 701 NC 81.0 175.0 89.2 REMARK 620 5 HEM B 701 ND 88.9 90.3 178.9 89.7 REMARK 620 6 HIS B 23 NE2 169.0 93.0 97.2 91.9 82.6 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 HEM A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLP A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLP B 702 DBREF 5OHX A 1 504 UNP Q2V0C9 Q2V0C9_APIME 1 504 DBREF 5OHX B 1 504 UNP Q2V0C9 Q2V0C9_APIME 1 504 SEQRES 1 A 504 MET GLU PHE LYS GLN PRO ASN ARG PRO SER TYR CYS THR SEQRES 2 A 504 TRP GLU LEU ASN ALA THR ASN SER PRO HIS THR CYS ARG SEQRES 3 A 504 THR LYS ASN GLY ASP TYR THR LYS ILE MET PRO ASP ILE SEQRES 4 A 504 LEU THR ALA ILE GLY GLN THR PRO LEU ILE LYS LEU ASN SEQRES 5 A 504 ASN ILE PRO LYS SER TYR GLY ILE LYS CYS GLU ILE TYR SEQRES 6 A 504 ALA LYS CYS GLU PHE LEU ASN PRO GLY GLY SER VAL LYS SEQRES 7 A 504 ASP ARG ILE ALA TYR ARG MET ILE GLN ASP ALA GLU ASP SEQRES 8 A 504 LYS GLY LEU LEU LYS PRO GLY CYS THR ILE ILE GLU PRO SEQRES 9 A 504 THR SER GLY ASN THR GLY ILE GLY LEU ALA MET ALA ALA SEQRES 10 A 504 ALA VAL ARG GLY TYR LYS CYS ILE ILE VAL MET PRO GLU SEQRES 11 A 504 LYS MET SER ASP GLU LYS ILE SER THR LEU TYR ALA LEU SEQRES 12 A 504 GLY ALA LYS ILE ILE ARG THR PRO THR GLU ALA SER TRP SEQRES 13 A 504 HIS SER PRO GLU ALA HIS ILE SER VAL ALA GLN LYS LEU SEQRES 14 A 504 GLN LYS GLU ILE PRO ASN SER ILE ILE LEU ASP GLN TYR SEQRES 15 A 504 THR ASN PRO GLY ASN PRO LEU ALA HIS TYR ASP GLN THR SEQRES 16 A 504 ALA ILE GLU ILE TRP LYS GLN CYS GLU GLY LYS ILE ASP SEQRES 17 A 504 TYR LEU VAL ALA GLY ALA GLY THR GLY GLY THR ILE SER SEQRES 18 A 504 GLY ILE GLY ARG LYS LEU LYS GLU LEU SER PRO ASN ILE SEQRES 19 A 504 LYS ILE ILE ALA VAL ASP PRO LYS GLY SER ILE LEU ASP SEQRES 20 A 504 PRO SER SER ASP SER GLN ASN GLU VAL GLY PHE TYR GLU SEQRES 21 A 504 VAL GLU GLY ILE GLY TYR ASP PHE ILE PRO THR VAL LEU SEQRES 22 A 504 ASP ARG ASN VAL ILE ASP LYS TRP ILE LYS THR GLU ASP SEQRES 23 A 504 ASN GLU SER LEU ASN ALA ALA ARG MET LEU ILE ARG GLN SEQRES 24 A 504 GLU GLY LEU LEU CYS GLY GLY SER SER GLY ALA ALA LEU SEQRES 25 A 504 ILE ALA ALA LEU LYS ILE ALA LYS ASP ILE PRO GLU GLU SEQRES 26 A 504 LYS ARG MET VAL ILE ILE LEU PRO ASP GLY ILE ARG ASN SEQRES 27 A 504 TYR LEU THR LYS PHE VAL SER GLU TYR TRP MET GLU THR SEQRES 28 A 504 ARG GLY PHE LEU GLN PRO VAL CYS GLN ASN GLU MET ASN SEQRES 29 A 504 LYS TRP TRP TRP ASN MET LYS ILE SER ASN LEU SER PHE SEQRES 30 A 504 ASP LYS GLN SER LEU LEU LYS GLU ASN THR VAL THR CYS SEQRES 31 A 504 GLN GLU ALA MET HIS MET LEU LYS ASN ALA ASP SER GLN SEQRES 32 A 504 LEU LEU VAL ILE SER ASP ASP ASN ILE HIS ILE LYS GLY SEQRES 33 A 504 VAL ILE SER LEU ASN LYS LEU THR SER TYR VAL ILE SER SEQRES 34 A 504 GLY ILE VAL LYS CYS THR ASP PHE VAL ASP LYS ALA MET SEQRES 35 A 504 VAL LYS GLN TYR VAL LYS VAL LYS HIS SER ALA THR LEU SEQRES 36 A 504 GLY TYR ILE SER ARG VAL LEU GLU LYS GLU PRO TYR VAL SEQRES 37 A 504 ILE ILE LEU ASP ASP GLU HIS ASP ASP ALA PHE ILE GLY SEQRES 38 A 504 ILE VAL ASN GLN PHE HIS ILE LEU GLN PHE ILE THR LYS SEQRES 39 A 504 ASN GLY THR SER ASN ASN TYR LEU ILE ASN SEQRES 1 B 504 MET GLU PHE LYS GLN PRO ASN ARG PRO SER TYR CYS THR SEQRES 2 B 504 TRP GLU LEU ASN ALA THR ASN SER PRO HIS THR CYS ARG SEQRES 3 B 504 THR LYS ASN GLY ASP TYR THR LYS ILE MET PRO ASP ILE SEQRES 4 B 504 LEU THR ALA ILE GLY GLN THR PRO LEU ILE LYS LEU ASN SEQRES 5 B 504 ASN ILE PRO LYS SER TYR GLY ILE LYS CYS GLU ILE TYR SEQRES 6 B 504 ALA LYS CYS GLU PHE LEU ASN PRO GLY GLY SER VAL LYS SEQRES 7 B 504 ASP ARG ILE ALA TYR ARG MET ILE GLN ASP ALA GLU ASP SEQRES 8 B 504 LYS GLY LEU LEU LYS PRO GLY CYS THR ILE ILE GLU PRO SEQRES 9 B 504 THR SER GLY ASN THR GLY ILE GLY LEU ALA MET ALA ALA SEQRES 10 B 504 ALA VAL ARG GLY TYR LYS CYS ILE ILE VAL MET PRO GLU SEQRES 11 B 504 LYS MET SER ASP GLU LYS ILE SER THR LEU TYR ALA LEU SEQRES 12 B 504 GLY ALA LYS ILE ILE ARG THR PRO THR GLU ALA SER TRP SEQRES 13 B 504 HIS SER PRO GLU ALA HIS ILE SER VAL ALA GLN LYS LEU SEQRES 14 B 504 GLN LYS GLU ILE PRO ASN SER ILE ILE LEU ASP GLN TYR SEQRES 15 B 504 THR ASN PRO GLY ASN PRO LEU ALA HIS TYR ASP GLN THR SEQRES 16 B 504 ALA ILE GLU ILE TRP LYS GLN CYS GLU GLY LYS ILE ASP SEQRES 17 B 504 TYR LEU VAL ALA GLY ALA GLY THR GLY GLY THR ILE SER SEQRES 18 B 504 GLY ILE GLY ARG LYS LEU LYS GLU LEU SER PRO ASN ILE SEQRES 19 B 504 LYS ILE ILE ALA VAL ASP PRO LYS GLY SER ILE LEU ASP SEQRES 20 B 504 PRO SER SER ASP SER GLN ASN GLU VAL GLY PHE TYR GLU SEQRES 21 B 504 VAL GLU GLY ILE GLY TYR ASP PHE ILE PRO THR VAL LEU SEQRES 22 B 504 ASP ARG ASN VAL ILE ASP LYS TRP ILE LYS THR GLU ASP SEQRES 23 B 504 ASN GLU SER LEU ASN ALA ALA ARG MET LEU ILE ARG GLN SEQRES 24 B 504 GLU GLY LEU LEU CYS GLY GLY SER SER GLY ALA ALA LEU SEQRES 25 B 504 ILE ALA ALA LEU LYS ILE ALA LYS ASP ILE PRO GLU GLU SEQRES 26 B 504 LYS ARG MET VAL ILE ILE LEU PRO ASP GLY ILE ARG ASN SEQRES 27 B 504 TYR LEU THR LYS PHE VAL SER GLU TYR TRP MET GLU THR SEQRES 28 B 504 ARG GLY PHE LEU GLN PRO VAL CYS GLN ASN GLU MET ASN SEQRES 29 B 504 LYS TRP TRP TRP ASN MET LYS ILE SER ASN LEU SER PHE SEQRES 30 B 504 ASP LYS GLN SER LEU LEU LYS GLU ASN THR VAL THR CYS SEQRES 31 B 504 GLN GLU ALA MET HIS MET LEU LYS ASN ALA ASP SER GLN SEQRES 32 B 504 LEU LEU VAL ILE SER ASP ASP ASN ILE HIS ILE LYS GLY SEQRES 33 B 504 VAL ILE SER LEU ASN LYS LEU THR SER TYR VAL ILE SER SEQRES 34 B 504 GLY ILE VAL LYS CYS THR ASP PHE VAL ASP LYS ALA MET SEQRES 35 B 504 VAL LYS GLN TYR VAL LYS VAL LYS HIS SER ALA THR LEU SEQRES 36 B 504 GLY TYR ILE SER ARG VAL LEU GLU LYS GLU PRO TYR VAL SEQRES 37 B 504 ILE ILE LEU ASP ASP GLU HIS ASP ASP ALA PHE ILE GLY SEQRES 38 B 504 ILE VAL ASN GLN PHE HIS ILE LEU GLN PHE ILE THR LYS SEQRES 39 B 504 ASN GLY THR SER ASN ASN TYR LEU ILE ASN HET HEM A 701 43 HET PLP A 702 15 HET HEM B 701 43 HET PLP B 702 15 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETSYN HEM HEME HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 PLP 2(C8 H10 N O6 P) HELIX 1 AA1 ASP A 38 ILE A 43 5 6 HELIX 2 AA2 ASN A 52 TYR A 58 1 7 HELIX 3 AA3 VAL A 77 LYS A 92 1 16 HELIX 4 AA4 GLY A 107 GLY A 121 1 15 HELIX 5 AA5 GLU A 135 LEU A 143 1 9 HELIX 6 AA6 ALA A 161 ILE A 173 1 13 HELIX 7 AA7 PRO A 185 GLN A 194 1 10 HELIX 8 AA8 GLN A 194 CYS A 203 1 10 HELIX 9 AA9 GLY A 217 SER A 231 1 15 HELIX 10 AB1 GLU A 285 GLY A 301 1 17 HELIX 11 AB2 GLY A 305 ALA A 319 1 15 HELIX 12 AB3 LYS A 320 ILE A 322 5 3 HELIX 13 AB4 SER A 345 ARG A 352 1 8 HELIX 14 AB5 ASN A 361 TRP A 367 5 7 HELIX 15 AB6 LYS A 371 LEU A 375 5 5 HELIX 16 AB7 THR A 389 ALA A 400 1 12 HELIX 17 AB8 SER A 419 GLY A 430 1 12 HELIX 18 AB9 PHE A 437 MET A 442 5 6 HELIX 19 AC1 THR A 454 LEU A 462 1 9 HELIX 20 AC2 ASN A 484 LYS A 494 1 11 HELIX 21 AC3 ASP B 38 ILE B 43 5 6 HELIX 22 AC4 ASN B 52 TYR B 58 1 7 HELIX 23 AC5 VAL B 77 LYS B 92 1 16 HELIX 24 AC6 GLY B 107 GLY B 121 1 15 HELIX 25 AC7 GLU B 135 LEU B 143 1 9 HELIX 26 AC8 ALA B 161 ILE B 173 1 13 HELIX 27 AC9 PRO B 185 GLN B 194 1 10 HELIX 28 AD1 GLN B 194 CYS B 203 1 10 HELIX 29 AD2 GLY B 217 SER B 231 1 15 HELIX 30 AD3 GLU B 285 GLY B 301 1 17 HELIX 31 AD4 GLY B 305 ALA B 319 1 15 HELIX 32 AD5 GLY B 335 LEU B 340 5 6 HELIX 33 AD6 SER B 345 ARG B 352 1 8 HELIX 34 AD7 ASN B 361 TRP B 366 5 6 HELIX 35 AD8 LYS B 371 LEU B 375 5 5 HELIX 36 AD9 THR B 389 ALA B 400 1 12 HELIX 37 AE1 SER B 419 GLY B 430 1 12 HELIX 38 AE2 PHE B 437 MET B 442 5 6 HELIX 39 AE3 THR B 454 LEU B 462 1 9 HELIX 40 AE4 ASN B 484 LYS B 494 1 11 SHEET 1 AA1 6 LEU A 48 LYS A 50 0 SHEET 2 AA1 6 GLU A 63 CYS A 68 -1 O ALA A 66 N ILE A 49 SHEET 3 AA1 6 ARG A 327 LEU A 332 1 O ILE A 330 N LYS A 67 SHEET 4 AA1 6 TYR A 209 GLY A 213 1 N VAL A 211 O VAL A 329 SHEET 5 AA1 6 LYS A 235 PRO A 241 1 O ILE A 237 N LEU A 210 SHEET 6 AA1 6 LYS A 280 THR A 284 1 O LYS A 280 N ALA A 238 SHEET 1 AA2 4 ALA A 145 ILE A 148 0 SHEET 2 AA2 4 LYS A 123 VAL A 127 1 N ILE A 126 O LYS A 146 SHEET 3 AA2 4 THR A 100 GLU A 103 1 N ILE A 101 O LYS A 123 SHEET 4 AA2 4 SER A 176 ILE A 178 1 O ILE A 177 N ILE A 102 SHEET 1 AA3 2 LEU A 405 ILE A 407 0 SHEET 2 AA3 2 GLY A 416 ILE A 418 -1 O GLY A 416 N ILE A 407 SHEET 1 AA4 3 LYS A 448 LYS A 450 0 SHEET 2 AA4 3 VAL A 468 ASP A 472 1 O ILE A 469 N VAL A 449 SHEET 3 AA4 3 ALA A 478 VAL A 483 -1 O GLY A 481 N ILE A 470 SHEET 1 AA5 6 LEU B 48 LYS B 50 0 SHEET 2 AA5 6 GLU B 63 CYS B 68 -1 O ALA B 66 N ILE B 49 SHEET 3 AA5 6 ARG B 327 LEU B 332 1 O ILE B 330 N LYS B 67 SHEET 4 AA5 6 TYR B 209 GLY B 213 1 N VAL B 211 O VAL B 329 SHEET 5 AA5 6 LYS B 235 PRO B 241 1 O ILE B 237 N LEU B 210 SHEET 6 AA5 6 LYS B 280 THR B 284 1 O ILE B 282 N ASP B 240 SHEET 1 AA6 4 LYS B 146 ILE B 148 0 SHEET 2 AA6 4 LYS B 123 VAL B 127 1 N ILE B 126 O LYS B 146 SHEET 3 AA6 4 THR B 100 GLU B 103 1 N ILE B 101 O ILE B 125 SHEET 4 AA6 4 SER B 176 ILE B 178 1 O ILE B 177 N ILE B 102 SHEET 1 AA7 2 LEU B 405 ILE B 407 0 SHEET 2 AA7 2 GLY B 416 ILE B 418 -1 O GLY B 416 N ILE B 407 SHEET 1 AA8 3 LYS B 448 LYS B 450 0 SHEET 2 AA8 3 VAL B 468 ASP B 472 1 O LEU B 471 N VAL B 449 SHEET 3 AA8 3 ALA B 478 VAL B 483 -1 O GLY B 481 N ILE B 470 LINK NZ LYS A 78 C4A PLP A 702 1555 1555 1.58 LINK SG CYS A 12 FE HEM A 701 1555 1555 2.24 LINK NE2 HIS A 23 FE HEM A 701 1555 1555 2.19 LINK SG CYS B 12 FE HEM B 701 1555 1555 2.19 LINK NE2 HIS B 23 FE HEM B 701 1555 1555 2.20 SITE 1 AC1 15 ARG A 8 SER A 10 TYR A 11 CYS A 12 SITE 2 AC1 15 THR A 13 TRP A 14 ALA A 18 ASN A 20 SITE 3 AC1 15 SER A 21 HIS A 23 PRO A 185 PRO A 188 SITE 4 AC1 15 TYR A 192 ARG A 225 VAL A 272 SITE 1 AC2 13 LYS A 78 ASN A 108 GLY A 213 ALA A 214 SITE 2 AC2 13 GLY A 215 THR A 216 GLY A 217 GLY A 218 SITE 3 AC2 13 THR A 219 GLY A 263 SER A 307 PRO A 333 SITE 4 AC2 13 ASP A 334 SITE 1 AC3 17 ARG B 8 SER B 10 TYR B 11 CYS B 12 SITE 2 AC3 17 THR B 13 TRP B 14 ALA B 18 ASN B 20 SITE 3 AC3 17 SER B 21 PRO B 22 HIS B 23 PRO B 185 SITE 4 AC3 17 PRO B 188 TYR B 192 ARG B 225 VAL B 272 SITE 5 AC3 17 HIS B 475 SITE 1 AC4 13 LYS B 78 ASN B 108 ALA B 214 GLY B 215 SITE 2 AC4 13 THR B 216 GLY B 217 GLY B 218 THR B 219 SITE 3 AC4 13 GLY B 263 ILE B 264 SER B 307 PRO B 333 SITE 4 AC4 13 ASP B 334 CRYST1 86.143 96.099 180.684 90.00 90.00 90.00 P 21 21 21 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 0.011609 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010406 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005535 0.00000