1WDX - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   YEAST BBC1 SH3 DOMAIN, TRICLINIC CRYSTAL FORM

Authors :   M. Wilmanns, L. Consani Textor, P. Kursula, I. Kursula, F. Lehmann, Y. H. Song

Date :   19 May 04 (Deposition) - 31 May 05 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Sh3 Domain, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Wilmanns, L. Consani Textor, P. Kursula, I. Kursula, F. Lehmann, Y. H. Song
Crystal Structure Of Yeast Bbc1 Sh3 Domain, Triclinic Crystal Form
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - MYOSIN TAIL REGION-INTERACTING PROTEIN MTI1
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PDEST17
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	SH3 DOMAIN
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	BBC1 PROTEIN

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1WDX)

(no "Site" information available for 1WDX)

(no "SS Bond" information available for 1WDX)

Asymmetric Unit

No.	Residues
1	Val A:7	-	Pro A:8
2	Val B:7	-	Pro B:8
3	Val C:7	-	Pro C:8
4	Val D:7	-	Pro D:8

(no "SAP(SNP)/Variant" information available for 1WDX)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SH3	PS50002	Src homology 3 (SH3) domain profile.	BBC1_YEAST	5-69	4	A:6-67 B:6-67 C:6-67 D:6-67

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SH3	PS50002	Src homology 3 (SH3) domain profile.	BBC1_YEAST	5-69	1	A:6-67 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SH3	PS50002	Src homology 3 (SH3) domain profile.	BBC1_YEAST	5-69	1	- B:6-67 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SH3	PS50002	Src homology 3 (SH3) domain profile.	BBC1_YEAST	5-69	1	- - C:6-67 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SH3	PS50002	Src homology 3 (SH3) domain profile.	BBC1_YEAST	5-69	1	- - - D:6-67

Asymmetric Unit (1, 4)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	YJL020C	1	YJL020C.1	X:402404-398931	3474	BBC1_YEAST	1-1157	1157	4	A:5-67 B:5-67 C:5-67 D:5-67	63 63 63 63

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
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Chain A from PDB  Type:PROTEIN  Length:63
 aligned with BBC1_YEAST | P47068 from UniProtKB/Swiss-Prot  Length:1157

    Alignment length:63
                                    13        23        33        43        53        63   
            BBC1_YEAST    4 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 66
               SCOP domains --------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eeeeeee....eeeeeee.....eeeeeee...ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -SH3  PDB: A:6-67 UniProt: 5-69                                 PROSITE
               Transcript 1 Exon 1.1  PDB: A:5-67 UniProt: 1-1157 [INCOMPLETE]              Transcript 1
                  1wdx A  5 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 67
                                    14        24        34        44        54        64

Chain B from PDB  Type:PROTEIN  Length:63
 aligned with BBC1_YEAST | P47068 from UniProtKB/Swiss-Prot  Length:1157

    Alignment length:63
                                    13        23        33        43        53        63   
            BBC1_YEAST    4 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 66
               SCOP domains --------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eeeeeee....eeeeeee.....eeeeeee...ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -SH3  PDB: B:6-67 UniProt: 5-69                                 PROSITE
               Transcript 1 Exon 1.1  PDB: B:5-67 UniProt: 1-1157 [INCOMPLETE]              Transcript 1
                  1wdx B  5 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 67
                                    14        24        34        44        54        64

Chain C from PDB  Type:PROTEIN  Length:63
 aligned with BBC1_YEAST | P47068 from UniProtKB/Swiss-Prot  Length:1157

    Alignment length:63
                                    13        23        33        43        53        63   
            BBC1_YEAST    4 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 66
               SCOP domains --------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee..................eeeeeee....eeeeeee.....eeeeeee...ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -SH3  PDB: C:6-67 UniProt: 5-69                                 PROSITE
               Transcript 1 Exon 1.1  PDB: C:5-67 UniProt: 1-1157 [INCOMPLETE]              Transcript 1
                  1wdx C  5 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 67
                                    14        24        34        44        54        64

Chain D from PDB  Type:PROTEIN  Length:63
 aligned with BBC1_YEAST | P47068 from UniProtKB/Swiss-Prot  Length:1157

    Alignment length:63
                                    13        23        33        43        53        63   
            BBC1_YEAST    4 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 66
               SCOP domains --------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
           Pfam domains (1) -------SH3_1-1wdxD01 D:12-62                              ----- Pfam domains (1)
           Pfam domains (2) -------SH3_1-1wdxD02 D:12-62                              ----- Pfam domains (2)
           Pfam domains (3) -------SH3_1-1wdxD03 D:12-62                              ----- Pfam domains (3)
           Pfam domains (4) -------SH3_1-1wdxD04 D:12-62                              ----- Pfam domains (4)
         Sec.struct. author ....eeeee..................eeeeeee....eeeeeee.....eeeeeee...ee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -SH3  PDB: D:6-67 UniProt: 5-69                                 PROSITE
               Transcript 1 Exon 1.1  PDB: D:5-67 UniProt: 1-1157 [INCOMPLETE]              Transcript 1
                  1wdx D  5 PEVPFKVVAQFPYKSDYEDDLNFEKDQEIIVTSVEDAEWYFGEYQDSNGDVIEGIFPKSFVAV 67
                                    14        24        34        44        54        64

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 1WDX)

(no "CATH Domain" information available for 1WDX)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: SH3 (175)

Family: SH3_1 (141)

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast) (24)

1a	SH3_1-1wdxD01	D:12-62
1b	SH3_1-1wdxD02	D:12-62
1c	SH3_1-1wdxD03	D:12-62
1d	SH3_1-1wdxD04	D:12-62

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (BBC1_YEAST | P47068)

molecular function
	GO:0017024	myosin I binding	Interacting selectively and non-covalently with a class I myosin; myosin I heavy chains are single-headed, possess tails of various lengths, and do not self-associate into bipolar filaments.
	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:0030036	actin cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
	GO:0007010	cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures.
cellular component
	GO:0030479	actin cortical patch	An endocytic patch that consists of an actin-containing structure found at the plasma membrane in cells; formed of networks of branched actin filaments that lie just beneath the plasma membrane and assemble, move, and disassemble rapidly. An example of this is the actin cortical patch found in Saccharomyces cerevisiae.
	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.

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(no "Sites" information available for 1wdx)

	Cis Peptide Bonds
		Val A:7 - Pro A:8	[ RasMol ]
		Val B:7 - Pro B:8	[ RasMol ]
		Val C:7 - Pro C:8	[ RasMol ]
		Val D:7 - Pro D:8	[ RasMol ]

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	1wdx
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	BBC1_YEAST \| P47068	:	1tg0 1zuk 2dyf

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Description

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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