3V09 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF RABBIT SERUM ALBUMIN

Authors :   K. A. Majorek, P. J. Porebski, M. Chruszcz, S. C. Almo, W. Minor, New Yor Structural Genomics Research Consortium (Nysgrc)

Date :   07 Dec 11 (Deposition) - 18 Jan 12 (Release) - 10 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.27

Chains :   Asym./Biol. Unit : A

Keywords :   Allergen, Structural Genomics, Psi-Biology, New York Structural Genomics Research Consortium, Nysgrc, Carrier Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. A. Majorek, P. J. Porebski, A. Dayal, M. D. Zimmerman, K. Jablonska, A. J. Stewart, M. Chruszcz, W. Minor
Structural And Immunologic Characterization Of Bovine, Horse, And Rabbit Serum Albumins.
Mol. Immunol. V. 52 174 2012
PubMed-ID: 22677715 | Reference-DOI: 10.1016/J.MOLIMM.2012.05.011

Molecule 1 - SERUM ALBUMIN
	Chains	:	A
	Organism Common	:	EUROPEAN RABBIT,JAPANESE WHITE RABBIT,DOMESTIC RABBIT,RABBITS
	Organism Scientific	:	ORYCTOLAGUS CUNICULUS
	Organism Taxid	:	9986

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (5, 33)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	EDO	5	Ligand/Ion	1,2-ETHANEDIOL
3	MES	2	Ligand/Ion	2-(N-MORPHOLINO)-ETHANESULFONIC ACID
4	PG4	3	Ligand/Ion	TETRAETHYLENE GLYCOL
5	UNK	22	Mod. Residue

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LEU A:387 , ASN A:391 , PHE A:403 , ARG A:410 , TYR A:411 , LEU A:430 , LEU A:453 , SER A:489	BINDING SITE FOR RESIDUE MES A 585
02	AC2	SOFTWARE	ASN A:402 , ASN A:405 , ASN A:541 , LYS A:545 , HOH A:793	BINDING SITE FOR RESIDUE PG4 A 586
03	AC3	SOFTWARE	ILE A:20 , LEU A:24 , TYR A:36 , VAL A:43 , LYS A:132	BINDING SITE FOR RESIDUE PG4 A 587
04	AC4	SOFTWARE	PHE A:115 , ARG A:117 , VAL A:142 , HIS A:146 , TYR A:161 , GLU A:186 , LEU A:190 , HOH A:686	BINDING SITE FOR RESIDUE MES A 588
05	AC5	SOFTWARE	GLN A:204 , LYS A:389	BINDING SITE FOR RESIDUE EDO A 611
06	AC6	SOFTWARE	HOH A:794	BINDING SITE FOR RESIDUE EDO A 612
07	AC7	SOFTWARE	SER A:489 , LEU A:491	BINDING SITE FOR RESIDUE EDO A 613
08	AC8	SOFTWARE	ASP A:249	BINDING SITE FOR RESIDUE EDO A 615
09	AC9	SOFTWARE	TYR A:150 , ARG A:257	BINDING SITE FOR RESIDUE CL A 616
10	BC1	SOFTWARE	ALA A:362 , ASP A:400	BINDING SITE FOR RESIDUE PG4 A 617

Asymmetric/Biological Unit

No.	Residues
1	A:53	-	A:62
2	A:75	-	A:91
3	A:90	-	A:101
4	A:124	-	A:169
5	A:168	-	A:177
6	A:200	-	A:246
7	A:245	-	A:253
8	A:265	-	A:279
9	A:278	-	A:289
10	A:316	-	A:361
11	A:360	-	A:369
12	A:392	-	A:438
13	A:437	-	A:448
14	A:461	-	A:477
15	A:476	-	A:487
16	A:514	-	A:559
17	A:558	-	A:567

Asymmetric/Biological Unit

No.	Residues
1	Glu A:95	-	Pro A:96

(no "SAP(SNP)/Variant" information available for 3V09)

Asymmetric/Biological Unit (2, 5)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ALBUMIN_2	PS51438	Albumin domain profile.	ALBU_RABIT	19-210 211-403 404-601	2	- A:187-379 A:380-577
2	ALBUMIN_1	PS00212	Albumin domain signature.	ALBU_RABIT	185-209 377-401 575-599	3	A:161-185 A:353-377 A:551-575

(no "Exon" information available for 3V09)

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
	(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:583
 aligned with ALBU_RABIT | P49065 from UniProtKB/Swiss-Prot  Length:608

    Alignment length:583
                                    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604   
           ALBU_RABIT    25 EAHKSEIAHRFNDVGEEHFIGLVLITFSQYLQKCPYEEHAKLVKEVTDLAKACVADESAANCDKSLHDIFGDKICALPSLRDTYGDVADCCEKKEPERNECFLHHKDDKPDLPPFARPEADVLCKAFHDDEKAFFGHYLYEVARRHPYFYAPELLYYAQKYKAILTECCEAADKGACLTPKLDALEGKSLISAAQERLRCASIQKFGDRAYKAWALVRLSQRFPKADFTDISKIVTDLTKVHKECCHGDLLECADDRADLAKYMCEHQETISSHLKECCDKPILEKAHCIYGLHNDETPAGLPAVAEEFVEDKDVCKNYEEAKDLFLGKFLYEYSRRHPDYSVVLLLRLGKAYEATLKKCCATDDPHACYAKVLDEFQPLVDEPKNLVKQNCELYEQLGDYNFQNALLVRYTKKVPQVSTPTLVEISRSLGKVGSKCCKHPEAERLPCVEDYLSVVLNRLCVLHEKTPVSEKVTKCCSESLVDRRPCFSALGPDETYVPKEFNAETFTFHADICTLPETERKIKKQTALVELVKHKPHATNDQLKTVVGEFTALLDKCCSAEDKEACFAVEGPKLVESSKATL 607
               SCOP domains d3v09a1 A:1-196 automated matches                                                                                                                                                                   d3v09a2 A:197-388 automated matches                                                                                                                                                             d3v09a3 A:389-583 automated matches                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhh........hhhhhhh....hhhhhhhhhh.............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh...........hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh..hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh..hhhhhhhh............hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ALBUMIN_2  PDB: - UniProt: 19-210                                                                                                                                                         ALBUMIN_2  PDB: A:187-379 UniProt: 211-403                                                                                                                                                       ALBUMIN_2  PDB: A:380-577 UniProt: 404-601                                                                                                                                                            ------ PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------ALBUMIN_1  PDB: A:161-185-----------------------------------------------------------------------------------------------------------------------------------------------------------------------ALBUMIN_1  PDB: A:353-377-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------ALBUMIN_1  PDB: A:551-575-------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3v09 A   1 EAHKSEIAHRFNDVGEEHFIGLVLITFSQYLQKCPYEEHAKLVKEVTDLAKACVADESAANCDKSLHDIFGDKICALPSLRDTYGDVADCCEKKEPERNECFLHHKDDKPDLPPFARPEADVLCKAFHDDEKAFFGHYLYEVARRHPYFYAPELLYYAQKYKAILTECCEAADKGACLTPKLDALEGKSLISAAQERLRCASIQKFGDRAYKAWALVRLSQRFPKADFTDISKIVTDLTKVHKECCHGDLLECADDRADLAKYMCEHQETISSHLKECCDKPILEKAHCIYGLHNDETPAGLPAVAEEFVEDKDVCKNYEEAKDLFLGKFLYEYSRRHPDYSVVLLLRLGKAYEATLKKCCATDDPHACYAKVLDEFQPLVDEPKNLVKQNCELYEQLGDYNFQNALLVRYTKKVPQVSTPTLVEISRSLGKVGSKCCKHPEAERLPCVEDYLSVVLNRLCVLHEKTPVSEKVTKCCSESLVDRRPCFSALGPDETYVPKEFNAETFTFHADICTLPETERKIKKQTALVELVKHKPHATNDQLKTVVGEFTALLDKCCSAEDKEACFAVEGPKLVESSKATL 583
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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 '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: All alpha proteins (14657)

Fold: Serum albumin-like (99)

Superfamily: Serum albumin-like (99)

Family: automated matches (24)

Protein domain: automated matches (24)

Rabbit (Oryctolagus cuniculus) [TaxId: 9986] (2)

1a	d3v09a1	A:1-196
1b	d3v09a2	A:197-388
1c	d3v09a3	A:389-583

(no "CATH Domain" information available for 3V09)

(no "Pfam Domain" information available for 3V09)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (ALBU_RABIT | P49065)

molecular function
	GO:0003677	DNA binding	Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
	GO:0008144	drug binding	Interacting selectively and non-covalently with a drug, any naturally occurring or synthetic substance, other than a nutrient, that, when administered or applied to an organism, affects the structure or functioning of the organism; in particular, any such substance used in the diagnosis, prevention, or treatment of disease.
	GO:0005504	fatty acid binding	Interacting selectively and non-covalently with fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0019825	oxygen binding	Interacting selectively and non-covalently with oxygen (O2).
	GO:0030170	pyridoxal phosphate binding	Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
	GO:0015643	toxic substance binding	Interacting selectively and non-covalently with a toxic substance, a poisonous substance that causes damage to biological systems.
biological process
	GO:0009267	cellular response to starvation	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of deprivation of nourishment.
	GO:0019836	hemolysis by symbiont of host erythrocytes	The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in the host organism by a symbiont. The host is defined as the larger of the organisms involved in a symbiotic interaction.
	GO:0051659	maintenance of mitochondrion location	Any process in which a mitochondrion is maintained in a specific location within a cell and prevented from moving elsewhere.
	GO:0043066	negative regulation of apoptotic process	Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0043234	protein complex	A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Glu A:95 - Pro A:96	[ RasMol ]

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(no "Entries Sharing at Least One Protein Chain" available for 3V09)

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 33)

Sites (10, 10)

SS Bonds (17, 17)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 5)

Exons (0, 0)

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