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(-) Description

Title :  CRYSTAL STRUCTURE OF ESCHERICHIA COLI FLAVIN TRAFFICKING PROTEIN, AN FMN TRANSFERASE
 
Authors :  D. R. Tomchick, C. A. Brautigam, R. K. Deka, M. V. Norgard
Date :  02 Jan 15  (Deposition) - 16 Dec 15  (Release) - 16 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.88
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Flavin Transferase, Bimetal Center, Lipoprotein, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. K. Deka, C. A. Brautigam, W. Z. Liu, D. R. Tomchick, M. V. Norgard
Molecular Insights Into The Enzymatic Diversity Of Flavin-Trafficking Protein (Ftp; Formerly Apbe) In Flavoprotein Biogenesis In The Bacterial Periplasm.
Microbiologyopen V. 5 21 2016
PubMed-ID: 26626129  |  Reference-DOI: 10.1002/MBO3.306

(-) Compounds

Molecule 1
    Chains: A, B, C, D
    EC Number: 2.7.1.180
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-21 NESG
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: SOLUBLE FRAGMENT, UNP RESIDUES 21-351
    Gene: APBE, YOJK, YOJL, B2214, JW5368
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: FLAVIN TRANSFERASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A  D
Biological Unit 2 (1x):  BC 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 20)

Asymmetric Unit (4, 20)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CA4Ligand/IonCALCIUM ION
3EDO13Ligand/Ion1,2-ETHANEDIOL
4NA2Ligand/IonSODIUM ION
Biological Unit 1 (2, 8)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3EDO7Ligand/Ion1,2-ETHANEDIOL
4NA-1Ligand/IonSODIUM ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1ACT-1Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3EDO6Ligand/Ion1,2-ETHANEDIOL
4NA-1Ligand/IonSODIUM ION

(-) Sites  (20, 20)

Asymmetric Unit (20, 20)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR A:166 , ASP A:280 , ASP A:283 , THR A:284 , HOH A:698 , HOH A:721binding site for residue CA A 501
02AC2SOFTWARELYS A:134 , THR A:137 , HOH A:652 , HOH A:685 , HOH A:746 , HOH A:750binding site for residue NA A 502
03AC3SOFTWAREGLY A:237 , SER A:238 , TYR A:239 , ARG A:240 , SER A:251 , HIS A:252binding site for residue EDO A 503
04AC4SOFTWAREPRO A:77 , TYR A:152 , HOH A:640 , HOH A:683 , HOH A:715 , TRP D:78binding site for residue EDO A 504
05AC5SOFTWAREASP A:174 , ALA A:177 , ARG A:178 , THR A:275 , HOH A:612 , HOH A:641 , HOH A:647 , HOH A:737binding site for residue EDO A 505
06AC6SOFTWAREGLN A:49 , HIS A:175 , LEU A:179 , GLN A:182binding site for residue EDO A 506
07AC7SOFTWAREASP A:99 , ALA A:101 , ASP A:255 , GLN A:257 , LEU A:289binding site for residue ACT A 507
08AC8SOFTWARETHR B:166 , ASP B:280 , ASP B:283 , THR B:284 , HOH B:712 , HOH B:759binding site for residue CA B 501
09AC9SOFTWAREHIS B:231 , ILE B:272 , ALA B:273 , PRO B:274 , GLY B:302 , ALA B:304 , PHE B:326 , GLU D:181binding site for residue EDO B 502
10AD1SOFTWAREARG B:178 , HOH B:648 , PRO D:274 , HOH D:621 , HOH D:642binding site for residue EDO B 503
11AD2SOFTWARELEU B:289 , GLY B:290 , PRO B:291 , GLU B:292 , LYS B:293binding site for residue EDO B 504
12AD3SOFTWAREGLY B:194 , LEU B:196 , THR B:235binding site for residue EDO B 505
13AD4SOFTWAREHIS B:175 , ARG B:178 , HOH B:615 , HOH B:667 , HOH B:750binding site for residue EDO B 506
14AD5SOFTWARETHR C:166 , ASP C:280 , ASP C:283 , THR C:284 , HOH C:703 , HOH C:748binding site for residue CA C 501
15AD6SOFTWARELYS C:134 , THR C:137 , HOH C:712 , HOH C:734 , HOH C:755binding site for residue NA C 502
16AD7SOFTWAREPRO A:274 , HOH A:617 , HOH A:637 , HOH A:662 , ARG C:178binding site for residue EDO C 503
17AD8SOFTWARETHR D:166 , ASP D:280 , ASP D:283 , THR D:284 , HOH D:724 , HOH D:760binding site for residue CA D 501
18AD9SOFTWAREHOH B:657 , ASP D:174 , ALA D:177 , ARG D:178 , THR D:275 , HOH D:629 , HOH D:661 , HOH D:729binding site for residue EDO D 502
19AE1SOFTWARETYR D:171 , ASP D:174 , HIS D:175 , ARG D:178 , HOH D:615binding site for residue EDO D 503
20AE2SOFTWAREMET D:23 , ASP D:54 , LEU D:57 , SER D:58 , SER D:165 , HOH D:663 , HOH D:733binding site for residue EDO D 504

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4XGV)

(-) 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:309
                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....eeehhhhhhhhhhhhhhhhhh.......hhhhhhhhh...........hhhhhhhhhhhhhhh.eeeee....eeeee........hhhhhhhhhhhhhhhhhhhh....eeeee..eeeee..........eeee...eeee.....eeeeeehhhhhh....................eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeehhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xgv A  12 ATEVTVLEGKTMGTFWRASIPGIDAKRSAELKEKIQTQLDADDQLLSTYKKDSALMRFNDSQSLSPWPVSEAMADIVTTSLRIGAKTDGAMDITVGPLVNLWGFGPEQQPVQIPSQEQIDAMKAKTGLQHLTVINQSHQQYLQKDLPDLYVDLSTVGEGYAADHLARLMEQEGISRYLVSVGGALNSRGMNGEGLPWRVAIQKPVQAVVDINGHGISTSGSYRNYYEGKRLSHVIDPQTGRPIEHNLVSVTVIAPTALEADAWDTGLMVLGPEKAKEVVRREGLAVYMITKEGDSFKTWMSPQFKSFLV 328
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211   ||  227       237      |249       259       269       279       289       299       309       319         
                                                                                                                                                                                                                                     215|                   244|                                                                                 
                                                                                                                                                                                                                                      222                    247                                                                                 


Chain B from PDB  Type:PROTEIN  Length:309
                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....eeehhhhhhhhhhhhhhhhhh.......hhhhhh..ee.....eee..hhhhhhhhhhhhhhh.eeeee....eeeee........hhhhhhhhhhhhhhhhhhhh....eeeee..eeeee..........ee.....ee.....eeeee.hhhhheee..eee...............eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeehhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xgv B  13 TEVTVLEGKTMGTFWRASIPGIDAKRSAELKEKIQTQLDADDQLLSTYKKDSALMRFNDSQSLSPWPVSEAMADIVTTSLRIGAKTDGAMDITVGPLVNLWGFGPEQQPVQIPSQEQIDAMKAKTGLQHLTVINQSHQQYLQKDLPDLYVDLSTVGEGYAADHLARLMEQEGISRYLVSVGGALNSRGMNGEGLPWRVAIQKPAVVDINGHGISTSGSYRNYYELDGKRLSHVIDPQTGRPIEHNLVSVTVIAPTALEADAWDTGLMVLGPEKAKEVVRREGLAVYMITKEGDSFKTWMSPQFKSFLVS 329
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212  ||   230       240       250       260       270       280       290       300       310       320         
                                                                                                                                                                                                                                    215|                                                                                                         
                                                                                                                                                                                                                                     224                                                                                                         


Chain C from PDB  Type:PROTEIN  Length:309
                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....eeehhhhhhhhhhhhhhhhhh.......hhhhhh...........hhhhhhhhhhhhhhh.eeeee....eeeee...........hhhhhhhhhhhhhhhhh....eeeee..eeeee..........ee........ee....eeeeee.......ee..ee....ee....ee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeehhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xgv C  13 TEVTVLEGKTMGTFWRASIPGIDAKRSAELKEKIQTQLDADDQLLSTYKKDSALMRFNDSQSLSPWPVSEAMADIVTTSLRIGAKTDGAMDITVGPLVNLWGFQQPVQIPSQEQIDAMKAKTGLQHLTVINQSHQQYLQKDLPDLYVDLSTVGEGYAADHLARLMEQEGISRYLVSVGGALNSRGMNGEGLPWRVAIQKPTVQAVVDINGHGISTSGSYRNYYELDGKRLSHVIDPQTGRPIEHNLVSVTVIAPTALEADAWDTGLMVLGPEKAKEVVRREGLAVYMITKEGDSFKTWMSPQFKSFLVS 329
                                    22        32        42        52        62        72        82        92       102       112  ||   125       135       145       155       165       175       185       195       205       215||     230       240       250       260       270       280       290       300       310       320         
                                                                                                                                115|                                                                                              216|                                                                                                           
                                                                                                                                 119                                                                                               222                                                                                                           


Chain D from PDB  Type:PROTEIN  Length:305
                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee..eeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhh.....eeehhhhhhhhhhhhhhhhhh.......hhhhhhhhh...........hhhhhhhhhhhhhhh.eeeee....eeeee........hhhhhhhhhhhhhhhhhhhh....eeeee..eeeee..........eee....eee.....eeeeee...........ee....ee....eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeeee..eeeeeehhhhhh.ee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xgv D  13 TEVTVLEGKTMGTFWRASIPGIDAKRSAELKEKIQTQLDADDQLLSTYKKDSALMRFNDSQSLSPWPVSEAMADIVTTSLRIGAKTDGAMDITVGPLVNLWGFGPEQQPVQIPSQEQIDAMKAKTGLQHLTVINQSHQQYLQKDLPDLYVDLSTVGEGYAADHLARLMEQEGISRYLVSVGGALNSRGMNGEGLPWRVAIQKPQAVVDINGHGISTSGSYRNYKRLSHVIDPQTGRPIEHNLVSVTVIAPTALEADAWDTGLMVLGPEKAKEVVRREGLAVYMITKEGDSFKTWMSPQFKSFLVS 329
                                    22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212  ||   229       239  ||   254       264       274       284       294       304       314       324     
                                                                                                                                                                                                                                    215|                242|                                                                                 
                                                                                                                                                                                                                                     223                 248
   Legend:   → Mismatch (orange background)
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  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 4XGV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

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 Related Entries

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        APBE_ECOLI | P0AB85: 2o18 4xgw 4xgx

(-) Related Entries Specified in the PDB File

2o18 2O18 CONTAINS THE SAME PROTEIN, BUT AT A LOWER RESOLUTION REFINEMENT.