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(-) Description

Title :  UNDA, AN OXYGEN-ACTIVATING, NON-HEME IRON DEPENDENT DESATURASE/DECARBOXYLASE
 
Authors :  X. Li, J. D. H. Cate
Date :  11 Nov 14  (Deposition) - 24 Dec 14  (Release) - 07 Jan 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Non-Heme Iron Dependent Desaturase/Decarboxylase, 1-Undecene Biosynthesis, Aliphatic Medium-Chain 1-Alkenes Biosynthesis, Metalloenzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Rui, X. Li, X. Zhu, J. Liu, B. Domigan, I. Barr, J. H. Cate, W. Zhang
Microbial Biosynthesis Of Medium-Chain 1-Alkenes By A Nonheme Iron Oxidase.
Proc. Natl. Acad. Sci. Usa V. 111 18237 2014
PubMed-ID: 25489112  |  Reference-DOI: 10.1073/PNAS.1419701112

(-) Compounds

Molecule 1 - TENA/THI-4 FAMILY PROTEIN
    Chains: A, B
    EC Number: 1.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PFL_4321
    Organism Scientific: PSEUDOMONAS PROTEGENS PF-5
    Organism Taxid: 220664
    Synonym: UNDA, OXYGEN-ACTIVATING NON-HEME IRON DEPENDENT DESATURASE/DECARBOXYLASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 19)

Asymmetric Unit (3, 19)
No.NameCountTypeFull Name
1FE2Ligand/IonFE (III) ION
2GOL8Ligand/IonGLYCEROL
3SO49Ligand/IonSULFATE ION
Biological Unit 1 (2, 16)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2GOL8Ligand/IonGLYCEROL
3SO48Ligand/IonSULFATE ION
Biological Unit 2 (2, 18)
No.NameCountTypeFull Name
1FE-1Ligand/IonFE (III) ION
2GOL8Ligand/IonGLYCEROL
3SO410Ligand/IonSULFATE ION

(-) Sites  (19, 19)

Asymmetric Unit (19, 19)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:101 , HIS A:104 , HIS A:194 , GOL A:302 , HOH A:667binding site for residue FE A 301
02AC2SOFTWAREPHE A:68 , GLU A:101 , HIS A:104 , GLU A:159 , THR A:162 , HIS A:194 , FE A:301 , GOL A:304 , SO4 A:308 , HOH A:667binding site for residue GOL A 302
03AC3SOFTWARETYR A:41 , TYR A:57 , GLY A:61 , LEU A:134 , MET A:236 , PHE A:239 , GOL A:304binding site for residue GOL A 303
04AC4SOFTWAREGLY A:61 , VAL A:65 , ILE A:158 , THR A:162 , TRP A:165 , MET A:236 , GOL A:302 , GOL A:303binding site for residue GOL A 304
05AC5SOFTWAREARG A:96 , ARG A:99 , HOH A:442binding site for residue GOL A 305
06AC6SOFTWAREARG A:92 , ARG A:96 , HOH A:526 , HOH A:532 , HOH A:647 , HOH A:694binding site for residue SO4 A 306
07AC7SOFTWAREARG A:99 , ASN A:103 , TYR A:107 , HOH A:442 , HOH A:472 , HOH A:563binding site for residue SO4 A 307
08AC8SOFTWARETRP A:93 , ASN A:97 , VAL A:100 , GLU A:101 , GLU A:159 , ASP A:198 , HIS A:201 , GOL A:302 , HOH A:561binding site for residue SO4 A 308
09AC9SOFTWAREPRO A:85 , GLY A:86 , GLU A:87 , ASP A:88 , MET A:89binding site for residue SO4 A 309
10AD1SOFTWAREGLU B:101 , HIS B:104 , HIS B:194 , GOL B:302 , HOH B:491binding site for residue FE B 301
11AD2SOFTWAREPHE B:68 , GLU B:101 , HIS B:104 , GLU B:159 , HIS B:194 , FE B:301 , GOL B:304 , SO4 B:309 , HOH B:491binding site for residue GOL B 302
12AD3SOFTWARETYR B:41 , TYR B:57 , GLY B:61 , LEU B:134 , MET B:236 , PHE B:239 , GOL B:304binding site for residue GOL B 303
13AD4SOFTWAREGLY B:61 , VAL B:65 , ILE B:158 , THR B:162 , TRP B:165 , MET B:236 , GOL B:302 , GOL B:303binding site for residue GOL B 304
14AD5SOFTWAREARG B:7 , THR B:8 , PRO B:10 , LEU B:11 , CYS B:170 , ALA B:176 , MET B:188 , LYS B:192 , GLN B:196binding site for residue GOL B 305
15AD6SOFTWAREARG B:92 , ARG B:96 , HOH B:430binding site for residue SO4 B 306
16AD7SOFTWAREARG B:99 , ASN B:103 , TYR B:107 , HOH B:448 , HOH B:494binding site for residue SO4 B 307
17AD8SOFTWAREARG B:96 , ARG B:99 , HOH B:415binding site for residue SO4 B 308
18AD9SOFTWAREPHE B:68 , ASN B:97 , GLU B:101 , GLU B:159 , HIS B:201 , GOL B:302 , HOH B:491 , HOH B:492binding site for residue SO4 B 309
19AE1SOFTWAREHIS B:84 , PRO B:85 , GLY B:86 , GLU B:87 , ASP B:88 , MET B:89binding site for residue SO4 B 310

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4WWJ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4WWJ)

(-) 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:256
                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wwj A   2 IDTFSRTGPLMEAASYPAWTQQLIQDCSESKRRVVEHELYQRMRDNKLSAKVMRQYLIGGWPVVEQFALYMAQNLTKTRFARHPGEDMARRWLMRNIRVELNHADYWVHWSRAHGVTLEDLQAQQVPPELHALSHWCWHTSSADSLIVAIAATNYAIEGATGEWSALVCSNGIYAAAFPEEDRKRAMKWLKMHAQYDDAHPWEALEIIVTLAGLNPTKALQAELRQAICKSYDYMYLFLERCMQQEKTAVTRERLA 257
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251      


Chain B from PDB  Type:PROTEIN  Length:256
                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhh.hhhhhhhhhhhh...hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4wwj B   2 IDTFSRTGPLMEAASYPAWTQQLIQDCSESKRRVVEHELYQRMRDNKLSAKVMRQYLIGGWPVVEQFALYMAQNLTKTRFARHPGEDMARRWLMRNIRVELNHADYWVHWSRAHGVTLEDLQAQQVPPELHALSHWCWHTSSADSLIVAIAATNYAIEGATGEWSALVCSNGIYAAAFPEEDRKRAMKWLKMHAQYDDAHPWEALEIIVTLAGLNPTKALQAELRQAICKSYDYMYLFLERCMQQEKTAVTRERLA 257
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251
   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 4WWJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q4K8M0_PSEF5 | Q4K8M0: 4wwz 4wx0

(-) Related Entries Specified in the PDB File

4wwz UNDA COMPLEXED WITH 2,3-DODECENOIC ACID
4wx0 UNDA COMPLEXED WITH BETA-HYDROXYDODECANOIC ACID