2GYD - JenaLib

Title :   COMPLEX OF EQUINE APOFERRITIN WITH THE H-DIAZIFLURANE PHOTOLABELING REAGENT

Authors :   P. J. Loll, M. J. Rossi, R. Eckenhoff

Date :   09 May 06 (Deposition) - 13 Jun 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.72

Chains :   Asym. Unit : A
Biol. Unit 1: A  (24x)

Keywords :   Helical Bundles, Anesthetic, Isoflurane, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Xi, R. Liu, M. J. Rossi, J. Yang, P. J. Loll, W. P. Dailey, R. G. Eckenhoff
Photoactive Analogues Of The Haloether Anesthetics Provide High-Resolution Features From Low-Affinity Interactions.
Acs Chem. Biol. V. 1 377 2006
PubMed-ID: 17163775 | Reference-DOI: 10.1021/CB600207D

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:80 , HOH A:1037	BINDING SITE FOR RESIDUE CD A 1001
2	AC2	SOFTWARE	CYS A:126 , GLU A:130 , CD A:1006 , CD A:1007	BINDING SITE FOR RESIDUE CD A 1002
3	AC3	SOFTWARE	GLU A:53 , GLU A:56	BINDING SITE FOR RESIDUE CD A 1003
4	AC4	SOFTWARE	GLU A:88	BINDING SITE FOR RESIDUE CD A 1004
5	AC5	SOFTWARE	GLU A:56 , GLU A:57 , GLU A:60 , HOH A:1156	BINDING SITE FOR RESIDUE CD A 1005
6	AC6	SOFTWARE	HIS A:114 , SER A:118 , CYS A:126 , GLU A:130 , CD A:1002	BINDING SITE FOR RESIDUE CD A 1006
7	AC7	SOFTWARE	GLU A:130 , CD A:1002	BINDING SITE FOR RESIDUE CD A 1007
8	AC8	SOFTWARE	LEU A:24 , SER A:27 , TYR A:28 , LEU A:81	BINDING SITE FOR RESIDUE DFE A 172

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (3, 3)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FERRITIN_LIKE	PS50905	Ferritin-like diiron domain profile.	FRIL_HORSE	7-156	1	A:6-155
2	FERRITIN_1	PS00540	Ferritin iron-binding regions signature 1.	FRIL_HORSE	58-76	1	A:57-75
3	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FRIL_HORSE	123-143	1	A:122-142

Biological Unit 1 (3, 72)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FERRITIN_LIKE	PS50905	Ferritin-like diiron domain profile.	FRIL_HORSE	7-156	24	A:6-155
2	FERRITIN_1	PS00540	Ferritin iron-binding regions signature 1.	FRIL_HORSE	58-76	24	A:57-75
3	FERRITIN_2	PS00204	Ferritin iron-binding regions signature 2.	FRIL_HORSE	123-143	24	A:122-142

Exons (0, 0)

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)
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Chain A from PDB  Type:PROTEIN  Length:168
 aligned with FRIL_HORSE | P02791 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:170
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172
           FRIL_HORSE     3 SQIRQNYSTEVEAAVNRLVNLYLRASYTYLSLGFYFDRDDVALEGVCHFFRELAEEKREGAERLLKMQNQRGGRALFQDLQKPSQDEWGTTLDAMKAAIVLEKSLNQALLDLHALGSAQADPHLCDFLESHFLDEEVKLIKKMGDHLTNIQRLVGSQAGLGEYLFERLTL 172
               SCOP domains d2gyda_ A: (Apo)ferritin                                                                                                                                                   SCOP domains
               CATH domains 2gydA00 A:2-171  [code=1.20.1260.10, no name defined]                                                                                                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh--hhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----FERRITIN_LIKE  PDB: A:6-155 UniProt: 7-156                                                                                                            ---------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------FERRITIN_1         ----------------------------------------------FERRITIN_2           ----------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gyd A   2 SQIRQNYSTEVEAAVNRLVNLYLRASYTYLSLGFYFDRDDVALEGVCHFFRELAEEKREGAERLLKMQNQRGGRALFQDLQKPSQDEWGTTLDAMKAAIVLEKSLNQALLDLHALGSAQADPHLCDFLESHFLDEEVKLIKKMGDHLTNIQRLV--QAGLGEYLFERLTL 171
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151   |  |161       171
                                                                                                                                                                                   155  |             
                                                                                                                                                                                      158

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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 (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Asymmetric Unit(hide GO term definitions)

Chain A (FRIL_HORSE | P02791)

molecular function
	GO:0008199	ferric iron binding	Interacting selectively and non-covalently with ferric iron, Fe(III).
	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.
biological process
	GO:0006879	cellular iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions at the level of a cell.
	GO:0006826	iron ion transport	The directed movement of iron (Fe) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
cellular component
	GO:0008043	intracellular ferritin complex	A ferritin complex located in the cell. Intracellular ferritin complexes contain 24 subunits, in a mixture of L (light) chains and H (heavy) chains.

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