3BVO - JenaLib

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Title :   CRYSTAL STRUCTURE OF HUMAN CO-CHAPERONE PROTEIN HSCB

Authors :   E. Bitto, C. A. Bingman, J. G. Mccoy, G. E. Wesenberg, G. N. Phillips Jr. For Eukaryotic Structural Genomics (Cesg)

Date :   07 Jan 08 (Deposition) - 15 Jan 08 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.00

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Co-Chaperone Protein Hscb, Structural Genomics Medical Relevance, Protein Structure Initiative, Psi-2, Center For Eukaryotic Structural Genomics, Cesg, Mitochondrion, Transit Peptide, Chaperone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. Bitto, C. A. Bingman, L. Bittova, D. A. Kondrashov, R. M. Bannen, B. G. Fox, J. L. Markley, G. N. Phillips
Structure Of Human J-Type Co-Chaperone Hscb Reveals A Tetracysteine Metal-Binding Domain.
J. Biol. Chem. V. 283 30184 2008
PubMed-ID: 18713742 | Reference-DOI: 10.1074/JBC.M804746200

Molecule 1 - CO-CHAPERONE PROTEIN HSCB, MITOCHONDRIAL PRECURSOR
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PVP 16
	Expression System Strain	:	B834 P(RARE2)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 30-235
	Gene	:	HSCB, DNAJC20, HSC20
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HSC20, DNAJ HOMOLOG SUBFAMILY C MEMBER 20

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 13)

No.	Name	Count	Type	Full Name
1	MSE	10	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	1	Ligand/Ion	SULFATE ION
3	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 6)

No.	Name	Count	Type	Full Name
1	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	1	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 5)

No.	Name	Count	Type	Full Name
1	MSE	5	Mod. Amino Acid	SELENOMETHIONINE
2	SO4	-1	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:41 , CYS A:44 , CYS A:58 , CYS A:61	BINDING SITE FOR RESIDUE ZN A 301
2	AC2	SOFTWARE	CYS B:41 , ASN B:43 , CYS B:44 , CYS B:58 , CYS B:61	BINDING SITE FOR RESIDUE ZN B 301
3	AC3	SOFTWARE	SER A:82 , PHE A:83 , ARG A:84 , PHE A:203 , GLU A:204	BINDING SITE FOR RESIDUE SO4 A 401

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

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

Asymmetric Unit (2, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_048916	Y	73	C	HSC20_HUMAN	Polymorphism	17886090	A/B	Y	73	C
2	UniProt	VAR_048917	I	163	M	HSC20_HUMAN	Polymorphism	17884212	A/B	I	163	M

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_048916	Y	73	C	HSC20_HUMAN	Polymorphism	17886090	A	Y	73	C
2	UniProt	VAR_048917	I	163	M	HSC20_HUMAN	Polymorphism	17884212	A	I	163	M

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_048916	Y	73	C	HSC20_HUMAN	Polymorphism	17886090	B	Y	73	C
2	UniProt	VAR_048917	I	163	M	HSC20_HUMAN	Polymorphism	17884212	B	I	163	M

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

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

Asymmetric Unit (6, 12)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000216027	1a	ENSE00001048167	chr22:29138019-29138319	301	HSC20_HUMAN	1-79	79	2	A:39-79 B:40-79 (gaps)	41 40
1.3b	ENST00000216027	3b	ENSE00000651976	chr22:29139870-29139966	97	HSC20_HUMAN	79-111	33	2	A:79-111 B:79-111	33 33
1.4a	ENST00000216027	4a	ENSE00001773843	chr22:29140603-29140692	90	HSC20_HUMAN	112-141	30	2	A:112-141 B:112-141	30 30
1.6	ENST00000216027	6	ENSE00001706163	chr22:29141852-29141996	145	HSC20_HUMAN	142-190	49	2	A:142-190 B:142-190 (gaps)	49 49
1.7	ENST00000216027	7	ENSE00001636126	chr22:29147229-29147276	48	HSC20_HUMAN	190-206	17	2	A:190-206 B:190-206	17 17
1.8c	ENST00000216027	8c	ENSE00000935935	chr22:29153066-29153498	433	HSC20_HUMAN	206-235	30	2	A:206-235 B:206-234	30 29

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:197
 aligned with HSC20_HUMAN | Q8IWL3 from UniProtKB/Swiss-Prot  Length:235

    Alignment length:197
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       
          HSC20_HUMAN    39 PRCWNCGGPWGPGREDRFFCPQCRALQAPDPTRDYFSLMDCNRSFRVDTAKLQHRYQQLQRLVHPDFFSQRSQTEKDFSEKHSTLVNDAYKTLLAPLSRGLYLLKLHGIEIPERTDYEMDRQFLIEIMEINEKLAEAESEAAMKEIESIVKAKQKEFTDNVSSAFEQDDFEEAKEILTKMRYFSNIEEKIKLKKIPL 235
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bvoA01 A:39-149  [code=1.10.287.110, no name defined]                                                         3bvoA02 A:150-235  [code=1.20.1280.20, no name defined]                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .................................hhhhhh........hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------C-----------------------------------------------------------------------------------------M------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: A:39-79 UniProt: 1-79    --------------------------------Exon 1.4a  PDB: A:112-141     Exon 1.6  PDB: A:142-190 UniProt: 142-190        ---------------Exon 1.8c  PDB: A:206-235      Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------Exon 1.3b  PDB: A:79-111         ------------------------------------------------------------------------------Exon 1.7         ----------------------------- Transcript 1 (2)
                 3bvo A  39 PRCWNCGGPWGPGREDRFFCPQCRALQAPDPTRDYFSLmDCNRSFRVDTAKLQHRYQQLQRLVHPDFFSQRSQTEKDFSEKHSTLVNDAYKTLLAPLSRGLYLLKLHGIEIPERTDYEmDRQFLIEImEINEKLAEAESEAAmKEIESIVKAKQKEFTDNVSSAFEQDDFEEAKEILTKmRYFSNIEEKIKLKKIPL 235
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178  |    188       198       208       218       228       
                                                                 77-MSE                                                                         157-MSE  166-MSE        181-MSE                              218-MSE

Chain B from PDB  Type:PROTEIN  Length:177
 aligned with HSC20_HUMAN | Q8IWL3 from UniProtKB/Swiss-Prot  Length:235

    Alignment length:195
                                    49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229     
          HSC20_HUMAN    40 RCWNCGGPWGPGREDRFFCPQCRALQAPDPTRDYFSLMDCNRSFRVDTAKLQHRYQQLQRLVHPDFFSQRSQTEKDFSEKHSTLVNDAYKTLLAPLSRGLYLLKLHGIEIPERTDYEMDRQFLIEIMEINEKLAEAESEAAMKEIESIVKAKQKEFTDNVSSAFEQDDFEEAKEILTKMRYFSNIEEKIKLKKIP 234
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3bvoB01       B:40-143  [code=1.10.287.110, no name defined]                                                        3bvoB02 B:156-234  [code=1.20.1280.20, no name defined]                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......------...................hhhhhh........hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh------------..hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------C-----------------------------------------------------------------------------------------M----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a  PDB: B:40-79 (gaps)          --------------------------------Exon 1.4a  PDB: B:112-141     Exon 1.6  PDB: B:142-190 (gaps) UniProt: 142-190 ---------------Exon 1.8c  PDB: B:206-234     Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------Exon 1.3b  PDB: B:79-111         ------------------------------------------------------------------------------Exon 1.7         ---------------------------- Transcript 1 (2)
                 3bvo B  40 RCWNCGG------EDRFFCPQCRALQAPDPTRDYFSLmDCNRSFRVDTAKLQHRYQQLQRLVHPDFFSQRSQTEKDFSEKHSTLVNDAYKTLLAPLSRGLYLLK------------EmDRQFLIEImEINEKLAEAESEAAmKEIESIVKAKQKEFTDNVSSAFEQDDFEEAKEILTKmRYFSNIEEKIKLKKIP 234
                                  |  -   |    59        69       |79        89        99       109       119       129       139   |     -      |159      |169       179 |     189       199       209       219       229     
                                 46     53                      77-MSE                                                           143          156|      166-MSE        181-MSE                              218-MSE            
                                                                                                                                               157-MSE

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 3BVO)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Helix Hairpins (718)

Homologous Superfamily: [code=1.10.287.110, no name defined] (21)

Human (Homo sapiens) (3)

1a	3bvoB01	B:40-143
1b	3bvoA01	A:39-149

Architecture: Up-down Bundle (3216)

Topology: Monooxygenase (39)

Homologous Superfamily: [code=1.20.1280.20, no name defined] (5)

Human (Homo sapiens) (1)

2a	3bvoA02	A:150-235
2b	3bvoB02	B:156-234

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (HSC20_HUMAN | Q8IWL3)

molecular function
	GO:0051087	chaperone binding	Interacting selectively and non-covalently with a chaperone protein, a class of proteins that bind to nascent or unfolded polypeptides and ensure correct folding or transport.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0003674	molecular_function	Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
	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:0016226	iron-sulfur cluster assembly	The incorporation of iron and exogenous sulfur into a metallo-sulfur cluster.
	GO:0006457	protein folding	The process of assisting in the covalent and noncovalent assembly of single chain polypeptides or multisubunit complexes into the correct tertiary structure.
	GO:0051259	protein oligomerization	The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers; protein oligomers may be composed of different or identical monomers. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 13)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 4)

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Exons (6, 12)

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