1ROA - JenaLib

Title :   STRUCTURE OF HUMAN CYSTATIN D

Authors :   M. Alvarez-Fernandez, Y. H. Liang, M. Abrahamson, X. D. Su

Date :   01 Dec 03 (Deposition) - 18 May 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Inhibitor Of Cysteine Pepidases, Cystatin D, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Alvarez-Fernandez, Y. H. Liang, M. Abrahamson, X. D. Su
Crystal Structure Of Human Cystatin D, A Cysteine Peptidase Inhibitor With Restricted Inhibition Profile.
J. Biol. Chem. V. 280 18221 2005
PubMed-ID: 15728581 | Reference-DOI: 10.1074/JBC.M411914200
(for further references see the PDB file header)

Compounds

Molecule 1 - CYSTATIN D
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PHD389
	Expression System Strain	:	MC1061
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Tissue	:	PAROTID GLAND

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

PROSITE Motifs (1, 1)

Exons (3, 3)

Asymmetric/Biological Unit (3, 3)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000304710	1	ENSE00001131256	chr20:23860387-23860083	305	CYTD_HUMAN	1-77	77	1	A:12-57	46
1.2	ENST00000304710	2	ENSE00001592538	chr20:23858255-23858142	114	CYTD_HUMAN	78-115	38	1	A:58-95	38
1.3	ENST00000304710	3	ENSE00001131251	chr20:23856908-23856572	337	CYTD_HUMAN	116-142	27	1	A:96-122	27

Sequences/Alignments

Asymmetric/Biological 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
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Chain A from PDB  Type:PROTEIN  Length:111
 aligned with CYTD_HUMAN | P28325 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:111
                                    41        51        61        71        81        91       101       111       121       131       141 
           CYTD_HUMAN    32 GGIHATDLNDKSVQCALDFAISEYNKVINKDEYYSRPLQVMAAYQQIVGGVNYYFNVKFGRTTCTKSQPNLDNCPFNDQPKLKEEEFCSFQINEVPWEDKISILNYKCRKV 142
               SCOP domains d1roaa_ A: Cystatin D                                                                                           SCOP domains
               CATH domains 1roaA00 A:12-122  [code=3.10.450.10, no name defined]                                                           CATH domains
               Pfam domains Cystatin-1roaA01 A:12-108                                                                        -------------- Pfam domains
         Sec.struct. author ..eeee...hhhhhhhhhhhhhhhhhh.....eeeeeeeeeeeeeee..eeeeeeeeeeeeeeee....................eeeeeeeeee....eeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------R------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------CYSTATIN      ----------------------------------------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:12-57 UniProt: 1-77          Exon 1.2  PDB: A:58-95 UniProt: 78-115Exon 1.3  PDB: A:96-122     Transcript 1
                 1roa A  12 GGIHATDLNDKSVQRALDFAISEYNKVINKDEYYSRPLQVMAAYQQIVGGVNYYFNVKFGRTTCTKSQPNLDNCPFNDQPKLKEEEFCSFQINEVPWEDKISILNYKCRKV 122
                                    21        31        41        51        61        71        81        91       101       111       121

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 (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CYTD_HUMAN | P28325)

molecular function
	GO:0004869	cysteine-type endopeptidase inhibitor activity	Stops, prevents or reduces the activity of a cysteine-type endopeptidase, any enzyme that hydrolyzes peptide bonds in polypeptides by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
	GO:0030414	peptidase inhibitor activity	Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
	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).
biological process
	GO:0010951	negative regulation of endopeptidase activity	Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
	GO:0010466	negative regulation of peptidase activity	Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
cellular component
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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