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Description

Title :   SOLUTION STRUCTURE OF THE PDZ DOMAIN FROM HUMAN FERM AND PDZ DOMAIN CONTAINING 1

Authors :   K. Seimiya, C. Kurosaki, M. Yoshida, F. Hayashi, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)

Date :   15 Feb 07 (Deposition) - 21 Aug 07 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (20x)

Keywords :   Cytoskeletal-Associated Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. Seimiya, C. Kurosaki, M. Yoshida, F. Hayashi, S. Yokoyama
Solution Structure Of The Pdz Domain From Human Ferm And Pdz Domain Containing 1
To Be Published
PubMed: search
(for further references see the PDB file header)

Compounds

Molecule 1 - FERM AND PDZ DOMAIN-CONTAINING PROTEIN 1
	Chains	:	A
	Engineered	:	YES
	Expression System Plasmid	:	P050711-09
	Expression System Vector Type	:	PLASMID
	Fragment	:	PDZ DOMAIN
	Gene	:	FRMPD1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	CELL FREE PROTEIN SYNTHESIS

Structural Features

Chains, Units


NMR Structure (20x)	:

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2EDV)

Sites (0, 0)

(no "Site" information available for 2EDV)

SS Bonds (0, 0)

(no "SS Bond" information available for 2EDV)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 2EDV)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2EDV)

PROSITE Motifs (1, 1)

NMR Structure (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PDZ	PS50106	PDZ domain profile.	FRPD1_HUMAN	57-135	1	A:11-89

Exons (6, 6)

NMR Structure (6, 6)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000377765	1	ENSE00001475061	chr9:37650997-37651091	95	FRPD1_HUMAN	-	0	0	-	-
1.2	ENST00000377765	2	ENSE00001475060	chr9:37692635-37692739	105	FRPD1_HUMAN	1-34	34	1	A:1-7	7
1.3	ENST00000377765	3	ENSE00000982365	chr9:37707413-37707570	158	FRPD1_HUMAN	34-87	54	1	A:8-41	34
1.4	ENST00000377765	4	ENSE00000982366	chr9:37708396-37708498	103	FRPD1_HUMAN	87-121	35	1	A:41-75	35
1.5	ENST00000377765	5	ENSE00000982367	chr9:37711347-37711392	46	FRPD1_HUMAN	121-136	16	1	A:75-90	16
1.6	ENST00000377765	6	ENSE00000982368	chr9:37719066-37719173	108	FRPD1_HUMAN	137-172	36	1	A:91-95	5
1.7	ENST00000377765	7	ENSE00000982369	chr9:37724222-37724317	96	FRPD1_HUMAN	173-204	32	1	A:96-96	1
1.8	ENST00000377765	8	ENSE00000982370	chr9:37729725-37729850	126	FRPD1_HUMAN	205-246	42	0	-	-
1.9	ENST00000377765	9	ENSE00000982371	chr9:37730981-37731100	120	FRPD1_HUMAN	247-286	40	0	-	-
1.10	ENST00000377765	10	ENSE00000982372	chr9:37732301-37732437	137	FRPD1_HUMAN	287-332	46	0	-	-
1.11	ENST00000377765	11	ENSE00000982373	chr9:37733470-37733596	127	FRPD1_HUMAN	332-374	43	0	-	-
1.12	ENST00000377765	12	ENSE00000982374	chr9:37733727-37733822	96	FRPD1_HUMAN	375-406	32	0	-	-
1.13	ENST00000377765	13	ENSE00000982375	chr9:37735549-37735731	183	FRPD1_HUMAN	407-467	61	0	-	-
1.14	ENST00000377765	14	ENSE00001048543	chr9:37737093-37737240	148	FRPD1_HUMAN	468-517	50	0	-	-
1.15	ENST00000377765	15	ENSE00001048539	chr9:37740075-37740881	807	FRPD1_HUMAN	517-786	270	0	-	-
1.16	ENST00000377765	16	ENSE00001048542	chr9:37744386-37746901	2516	FRPD1_HUMAN	786-1578	793	0	-	-

Sequences/Alignments

NMR Structure

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:96
 aligned with FRPD1_HUMAN | Q5SYB0 from UniProtKB/Swiss-Prot  Length:1578

    Alignment length:147
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       
          FRPD1_HUMAN    27 RSRDSSARAKVAAADGPARNPTQTLIPVRHTVKIDKDTLLQDYGFHISESLPLTVVAVTAGGSAHGKLFPGDQILQMNNEPAEDLSWERAVDILREAEDSLSITVVRCTSGVPKSSFLTEEKRARLKTNPVKVHFAEEVLISGHSQG 173
               SCOP domains d2edva_                     A: automated matches                                                                                                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......--------------------eeeeeee.......................................eeee........hhhhhhhhhhhh...eeeeeee...-------------------------------...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------PDZ  PDB: A:11-89 UniProt: 57-135                                              -------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.2----------------------------------------------------Exon 1.4  PDB: A:41-75             ---------------Exon 1.6  PDB: A:91-95 [INCOMPLETE] 1 Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.3  PDB: A:8-41 UniProt: 34-87 [INCOMPLETE]     ---------------------------------Exon 1.5        ------------------------------------- Transcript 1 (2)
                 2edv A   1 GSSGSSG--------------------VRHTVKIDKDTLLQDYGFHISESLPLTVVAVTAGGSAHGKLFPGDQILQMNNEPAEDLSWERAVDILREAEDSLSITVVRCTS-------------------------------SGPSSG  96
                                  |  -         -       |10        20        30        40        50        60        70        80        90         -         -         - |     
                                  7                    8                                                                                90                              91

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Classification and Annotation

SCOP Domains (1, 1)

NMR Structure

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: PDZ domain-like (299)

Superfamily: PDZ domain-like (299)

Family: automated matches (94)

Protein domain: automated matches (94)

Human (Homo sapiens) [TaxId: 9606] (71)

d2edva_

CATH Domains (0, 0)

(no "CATH Domain" information available for 2EDV)

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 2EDV)

Gene Ontology (7, 7)

NMR Structure(hide GO term definitions)

Chain A (FRPD1_HUMAN | Q5SYB0)

molecular function
	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).
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	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:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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	FRPD1_HUMAN \| Q5SYB0	:	4g2v

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