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(-) Description

Title :  P450CIN ACTIVE SITE WATER: IMPLICATIONS FOR SUBSTRATE BINDING AND SOLVENT ACCESSIBILITY
 
Authors :  Y. Madrona, T. L. Poulos
Date :  13 Jun 13  (Deposition) - 24 Jul 13  (Release) - 14 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.38
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  P450, Heme, Monooxygenase, Cindoxin, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Madrona, S. A. Hollingsworth, B. Khan, T. L. Poulos
P450Cin Active Site Water: Implications For Substrate Binding And Solvent Accessibility.
Biochemistry V. 52 5039 2013
PubMed-ID: 23829586  |  Reference-DOI: 10.1021/BI4006946

(-) Compounds

Molecule 1 - P450CIN
    Chains: A, B
    EC Number: 1.14.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCWORI-P450CIN-N242A
    Expression System Strain: DH5[ALPHA]
    Expression System Taxid: 668369
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 8-404
    Gene: CIN A, CINA
    Mutation: YES
    Organism Scientific: CITROBACTER BRAAKII
    Organism Taxid: 57706

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 9)

Asymmetric Unit (5, 9)
No.NameCountTypeFull Name
1CNL2Ligand/Ion1,3,3-TRIMETHYL-2-OXABICYCLO[2.2.2]OCTANE
2HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3PEG2Ligand/IonDI(HYDROXYETHYL)ETHER
4PG42Ligand/IonTETRAETHYLENE GLYCOL
5SO41Ligand/IonSULFATE ION
Biological Unit 1 (5, 5)
No.NameCountTypeFull Name
1CNL1Ligand/Ion1,3,3-TRIMETHYL-2-OXABICYCLO[2.2.2]OCTANE
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
4PG41Ligand/IonTETRAETHYLENE GLYCOL
5SO41Ligand/IonSULFATE ION
Biological Unit 2 (4, 4)
No.NameCountTypeFull Name
1CNL1Ligand/Ion1,3,3-TRIMETHYL-2-OXABICYCLO[2.2.2]OCTANE
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3PEG1Ligand/IonDI(HYDROXYETHYL)ETHER
4PG41Ligand/IonTETRAETHYLENE GLYCOL
5SO4-1Ligand/IonSULFATE ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:73 , VAL A:76 , MET A:90 , ALA A:91 , HIS A:98 , ARG A:102 , PHE A:109 , GLY A:238 , GLY A:239 , ALA A:242 , THR A:243 , ARG A:289 , PHE A:312 , SER A:339 , LEU A:340 , GLY A:341 , ILE A:344 , HIS A:345 , CYS A:347 , GLY A:349 , HOH A:627 , HOH A:1104BINDING SITE FOR RESIDUE HEM A 501
2AC2SOFTWARETYR A:81 , HOH A:778 , HOH A:1104BINDING SITE FOR RESIDUE CNL A 502
3AC3SOFTWAREGLY A:50 , GLY A:51 , PRO A:304 , PEG A:504 , HOH A:763 , HOH A:1056BINDING SITE FOR RESIDUE PG4 A 503
4AC4SOFTWAREPG4 A:503BINDING SITE FOR RESIDUE PEG A 504
5AC5SOFTWAREARG A:346 , ARG A:354 , HOH A:677 , HOH A:945 , HOH A:1071 , HOH A:1093 , GLN B:293 , HOH B:694BINDING SITE FOR RESIDUE SO4 A 505
6AC6SOFTWAREASN B:73 , VAL B:76 , MET B:90 , ALA B:91 , HIS B:98 , ARG B:102 , PHE B:109 , GLY B:238 , GLY B:239 , ALA B:242 , THR B:243 , PHE B:246 , VAL B:287 , ARG B:289 , PHE B:312 , SER B:339 , LEU B:340 , GLY B:341 , ILE B:344 , HIS B:345 , CYS B:347 , CNL B:502 , HOH B:627 , HOH B:838BINDING SITE FOR RESIDUE HEM B 501
7AC7SOFTWARETYR B:81 , VAL B:386 , HEM B:501 , HOH B:767 , HOH B:838BINDING SITE FOR RESIDUE CNL B 502
8AC8SOFTWAREGLY B:50 , PRO B:304 , GLY B:305 , GLN B:306 , PEG B:504 , HOH B:714 , HOH B:1114BINDING SITE FOR RESIDUE PG4 B 503
9AC9SOFTWARETRP B:45 , PG4 B:503BINDING SITE FOR RESIDUE PEG B 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L77)

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Phe A:78 -Pro A:79
2Asp A:95 -Pro A:96
3Thr A:333 -Pro A:334
4Phe B:78 -Pro B:79
5Asp B:95 -Pro B:96
6Thr B:333 -Pro B:334

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L77)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L77)

(-) Exons   (0, 0)

(no "Exon" information available for 4L77)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:397
                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhhh...ee.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l77 A   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRYETGEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVENPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDATARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLSE 404
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       


Chain B from PDB  Type:PROTEIN  Length:397
                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...................hhhhhhhhhhhhh...eeeehhhhheeee.hhhhhhhhhhh...ee.......................hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.....eeehhhhh.hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.ee..ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...eeeee...eee..eee....eeeehhhhhh.........................hhhhh..hhhhhhhhhhhhhhhhhhhh...ee......eee.....eeee.eee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l77 B   8 TSLFTTADHYHTPLGPDGTPHAFFEALRDEAETTPIGWSEAYGGHWVVAGYKEIQAVIQNTKAFSNKGVTFPRYETGEFELMMAGQDDPVHKKYRQLVAKPFSPEATDLFTEQLRQSTNDLIDARIELGEGDAATWLANEIPARLTAILLGLPPEDGDTYRRWVWAITHVENPEEGAEIFAELVAHARTLIAERRTNPGNDIMSRVIMSKIDGESLSEDDLIGFFTILLLGGIDATARFLSSVFWRLAWDIELRRRLIAHPELIPNAVDELLRFYGPAMVGRLVTQEVTVGDITMKPGQTAMLWFPIASRDRSAFDSPDNIVIERTPNRHLSLGHGIHRCLGAHLIRVEARVAITEFLKRIPEFSLDPNKECEWLMGQVAGMLHVPIIFPKGKRLSE 404
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4L77)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L77)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L77)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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        CINA_CITBR | Q8VQF6: 1t2b 3bdz 3be0 4fb2 4fmx 4fyz 4l6g 4lht

(-) Related Entries Specified in the PDB File

4l6g X-RAY CRYSTAL STRUCTURE OF P450CIN, Y81F MUTANT CRYSTALLIZED IN 7 MM 1,8-CINEOLE
4lht