3U9M - JenaLib

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Title :   STRUCTURE OF REDUCED HUMAN FBXL5 HEMERYTHRIN LIKE DOMAIN

Authors :   P. Li

Date :   19 Oct 11 (Deposition) - 22 Feb 12 (Release) - 25 Apr 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

Chains :   Asym. Unit : A,C,E,G
Biol. Unit 1: A  (1x)
Biol. Unit 2: C  (1x)
Biol. Unit 3: E  (1x)
Biol. Unit 4: G  (1x)

Keywords :   F-Box, Lrr, E3, Iron Sensor, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Shu, M. W. Sung, M. D. Stewart, T. I. Igumenova, X. Tan, P. Li
The Structural Basis Of Iron Sensing By The Human F-Box Protein Fbxl5.
Chembiochem V. 13 788 2012
PubMed-ID: 22492618 | Reference-DOI: 10.1002/CBIC.201200043

Molecule 1 - F-BOX/LRR-REPEAT PROTEIN 5
	Chains	:	A, C, E, G
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	FBXL5, FBL4, FBL5, FLR1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	F-BOX AND LEUCINE-RICH REPEAT PROTEIN 5, F-BOX PROTEIN FBL4/FBL5, P45SKP2-LIKE PROTEIN

		1	2	3	4
Asymmetric Unit	:	A	C	E	G
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		C
Biological Unit 3 (1x)	:			E
Biological Unit 4 (1x)	:				G

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 8)

No.	Name	Count	Type	Full Name
1	FE	8	Ligand/Ion	FE (III) ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:58 , GLU A:61 , HIS A:80 , HIS A:126 , GLU A:130 , HOH A:191 , FE A:202	BINDING SITE FOR RESIDUE FE A 201
2	AC2	SOFTWARE	HIS A:15 , HIS A:57 , GLU A:61 , GLU A:130 , HOH A:191 , FE A:201	BINDING SITE FOR RESIDUE FE A 202
3	AC3	SOFTWARE	GLU C:58 , GLU C:61 , HIS C:80 , HIS C:126 , GLU C:130 , FE C:204	BINDING SITE FOR RESIDUE FE C 203
4	AC4	SOFTWARE	HIS C:15 , HIS C:57 , GLU C:61 , GLU C:130 , FE C:203	BINDING SITE FOR RESIDUE FE C 204
5	AC5	SOFTWARE	GLU E:58 , GLU E:61 , HIS E:80 , HIS E:126 , GLU E:130 , HOH E:185 , FE E:206	BINDING SITE FOR RESIDUE FE E 205
6	AC6	SOFTWARE	HIS E:15 , HIS E:57 , GLU E:61 , GLU E:130 , HOH E:185 , FE E:205	BINDING SITE FOR RESIDUE FE E 206
7	AC7	SOFTWARE	GLU G:58 , GLU G:61 , HIS G:80 , HIS G:126 , GLU G:130 , FE G:208	BINDING SITE FOR RESIDUE FE G 207
8	AC8	SOFTWARE	HIS G:15 , HIS G:57 , GLU G:61 , GLU G:130 , FE G:207	BINDING SITE FOR RESIDUE FE G 208

(no "SS Bond" information available for 3U9M)

(no "Cis Peptide Bond" information available for 3U9M)

(no "SAP(SNP)/Variant" information available for 3U9M)

(no "PROSITE Motif" information available for 3U9M)

(no "Exon" information available for 3U9M)

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:157
 aligned with FBXL5_HUMAN | Q9UKA1 from UniProtKB/Swiss-Prot  Length:691

    Alignment length:157
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       
          FBXL5_HUMAN     4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u9m A   4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain C from PDB  Type:PROTEIN  Length:157
 aligned with FBXL5_HUMAN | Q9UKA1 from UniProtKB/Swiss-Prot  Length:691

    Alignment length:157
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       
          FBXL5_HUMAN     4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u9m C   4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain E from PDB  Type:PROTEIN  Length:157
 aligned with FBXL5_HUMAN | Q9UKA1 from UniProtKB/Swiss-Prot  Length:691

    Alignment length:157
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       
          FBXL5_HUMAN     4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u9m E   4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

Chain G from PDB  Type:PROTEIN  Length:157
 aligned with FBXL5_HUMAN | Q9UKA1 from UniProtKB/Swiss-Prot  Length:691

    Alignment length:157
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       
          FBXL5_HUMAN     4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhh.hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u9m G   4 FPEEVDVFTAPHWRMKQLVGLYCDKLSKTNFSNNNDFRALLQSLYATFKEFKMHEQIENEYIIGLLQQRSQTIYNVHSDNKLSEMLSLFEKGLKNVKNEYEQLNYAKQLKERLEAFTRDFLPHMKEEEEVFQPMLMEYFTYEELKDIKKKVIAQHCS 160
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153

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 '\|'

(no "SCOP Domain" information available for 3U9M)

(no "CATH Domain" information available for 3U9M)

(no "Pfam Domain" information available for 3U9M)

Asymmetric Unit(hide GO term definitions)

Chain A,C,E,G (FBXL5_HUMAN | Q9UKA1)

molecular function
	GO:0005506	iron ion binding	Interacting selectively and non-covalently with iron (Fe) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0004842	ubiquitin-protein transferase activity	Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
biological process
	GO:0031146	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, with ubiquitin-protein ligation catalyzed by an SCF (Skp1/Cul1/F-box protein) complex, and mediated by the proteasome.
	GO:0055072	iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.
	GO:1903364	positive regulation of cellular protein catabolic process	Any process that activates or increases the frequency, rate or extent of cellular protein catabolic process.
	GO:0016567	protein ubiquitination	The process in which one or more ubiquitin groups are added to a protein.
cellular component
	GO:0019005	SCF ubiquitin ligase complex	A ubiquitin ligase complex in which a cullin from the Cul1 subfamily and a RING domain protein form the catalytic core; substrate specificity is conferred by a Skp1 adaptor and an F-box protein. SCF complexes are involved in targeting proteins for degradation by the proteasome. The best characterized complexes are those from yeast and mammals (with core subunits named Cdc53/Cul1, Rbx1/Hrt1/Roc1).
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0048471	perinuclear region of cytoplasm	Cytoplasm situated near, or occurring around, the nucleus.
	GO:0000151	ubiquitin ligase complex	A protein complex that includes a ubiquitin-protein ligase and enables ubiquitin protein ligase activity. The complex also contains other proteins that may confer substrate specificity on the complex.

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	FBXL5_HUMAN \| Q9UKA1	:	3u9j 3v5x 3v5y 3v5z

Description

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Ligands, Modified Residues, Ions (1, 8)

Sites (8, 8)

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