1AU1 - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

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

Title :   HUMAN INTERFERON-BETA CRYSTAL STRUCTURE

Authors :   M. Karpusas, M. Nolte, W. Lipscomb

Date :   09 Sep 97 (Deposition) - 17 Jun 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym./Biol. Unit : A,B

Keywords :   Interferon, Helical Cytokine, Immune System, Cytokine (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Karpusas, M. Nolte, C. B. Benton, W. Meier, W. N. Lipscomb, S. Goelz
The Crystal Structure Of Human Interferon Beta At 2. 2-A Resolution.
Proc. Natl. Acad. Sci. Usa V. 94 11813 1997
PubMed-ID: 9342320 | Reference-DOI: 10.1073/PNAS.94.22.11813
(for further references see the PDB file header)

Molecule 1 - INTERFERON-BETA
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	CRICETULUS GRISEUS
	Expression System Cell Line	:	CHO
	Expression System Common	:	CHINESE HAMSTER
	Expression System Taxid	:	10029
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 10)

No.	Name	Count	Type	Full Name
1	BGC	7	Ligand/Ion	BETA-D-GLUCOSE
2	G6D	2	Ligand/Ion	6-DEOXY-ALPHA-D-GLUCOSE
3	ZN	1	Ligand/Ion	ZINC ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:80 , THR A:82 , BGC A:168 , G6D A:169	BINDING SITE FOR RESIDUE BGC A 167
02	AC2	SOFTWARE	BGC A:167 , BGC A:170 , BGC A:171	BINDING SITE FOR RESIDUE BGC A 168
03	AC3	SOFTWARE	GLN A:23 , ASN A:86 , BGC A:167	BINDING SITE FOR RESIDUE G6D A 169
04	AC4	SOFTWARE	BGC A:168 , BGC A:171	BINDING SITE FOR RESIDUE BGC A 170
05	AC5	SOFTWARE	BGC A:168 , BGC A:170 , BGC A:172	BINDING SITE FOR RESIDUE BGC A 171
06	AC6	SOFTWARE	BGC A:171 , BGC A:173	BINDING SITE FOR RESIDUE BGC A 172
07	AC7	SOFTWARE	BGC A:172	BINDING SITE FOR RESIDUE BGC A 173
08	AC8	SOFTWARE	ASN B:80 , THR B:82 , G6D B:168	BINDING SITE FOR RESIDUE BGC B 167
09	AC9	SOFTWARE	ASN B:86 , BGC B:167	BINDING SITE FOR RESIDUE G6D B 168
10	BC1	SOFTWARE	HIS A:121 , HIS B:93 , HIS B:97 , HOH B:221	BINDING SITE FOR RESIDUE ZN B 169

Asymmetric/Biological Unit

No.	Residues
1	A:31	-	A:141
2	B:31	-	B:141

(no "Cis Peptide Bond" information available for 1AU1)

Asymmetric/Biological Unit (2, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_004016	C	162	Y	IFNB_HUMAN	Unclassified	---	A/B	C	141	Y
2	UniProt	VAR_036330	W	164	C	IFNB_HUMAN	Unclassified	---	A/B	W	143	C

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	INTERFERON_A_B_D	PS00252	Interferon alpha, beta and delta family signature.	IFNB_HUMAN	146-164	2	A:125-143 B:125-143

Asymmetric/Biological Unit (1, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000380232	1	ENSE00001484173	chr9:21077943-21077104	840	IFNB_HUMAN	1-212	212	2	A:1-166 B:1-166 (gaps)	166 166

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:166
 aligned with IFNB_HUMAN | P01574 from UniProtKB/Swiss-Prot  Length:187

    Alignment length:166
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181      
           IFNB_HUMAN    22 MSYNLLGFLQRSSNFQCQKLLWQLNGRLEYCLKDRMNFDIPEEIKQLQQFQKEDAALTIYEMLQNIFAIFRQDSSSTGWNETIVENLLANVYHQINHLKTVLEEKLEKEDFTRGKLMSSLHLKRYYGRILHYLKAKEYSHCAWTIVRVEILRNFYFINRLTGYLRN 187
               SCOP domains d1au1a_ A: Interferon-beta                                                                                                                                             SCOP domains
               CATH domains 1au1A00 A:1-166  [code=1.20.1250.10, no name defined]                                                                                                                  CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh......hhhhh.......hhhhh.....hhhhhhhhhhhhhhhhhhh....hhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------Y-C----------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------INTERFERON_A_B_D   ----------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: A:1-166 UniProt: 1-212 [INCOMPLETE]                                                                                                                     Transcript 1
                 1au1 A   1 MSYNLLGFLQRSSNFQCQKLLWQLNGRLEYCLKDRMNFDIPEEIKQLQQFQKEDAALTIYEMLQNIFAIFRQDSSSTGWNETIVENLLANVYHQINHLKTVLEEKLEKEDFTRGKLMSSLHLKRYYGRILHYLKAKEYSHCAWTIVRVEILRNFYFINRLTGYLRN 166
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160

Chain B from PDB  Type:PROTEIN  Length:163
 aligned with IFNB_HUMAN | P01574 from UniProtKB/Swiss-Prot  Length:187

    Alignment length:166
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181      
           IFNB_HUMAN    22 MSYNLLGFLQRSSNFQCQKLLWQLNGRLEYCLKDRMNFDIPEEIKQLQQFQKEDAALTIYEMLQNIFAIFRQDSSSTGWNETIVENLLANVYHQINHLKTVLEEKLEKEDFTRGKLMSSLHLKRYYGRILHYLKAKEYSHCAWTIVRVEILRNFYFINRLTGYLRN 187
               SCOP domains d1au1b_ B: Interferon-beta                                                                                                                                             SCOP domains
               CATH domains 1au1B00 B:1-166  [code=1.20   .1250.10, no name defined]                                                                                                               CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhh....---...........hhhh......hhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------Y-C----------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------INTERFERON_A_B_D   ----------------------- PROSITE
               Transcript 1 Exon 1.1  PDB: B:1-166 (gaps) UniProt: 1-212 [INCOMPLETE]                                                                                                              Transcript 1
                 1au1 B   1 MSYNLLGFLQRSSNFQCQKLLWQLNGR---CLKDRMNFDIPEEIKQLQQFQKEDAALTIYEMLQNIFAIFRQDSSSTGWNETIVENLLANVYHQINHLKTVLEEKLEKEDFTRGKLMSSLHLKRYYGRILHYLKAKEYSHCAWTIVRVEILRNFYFINRLTGYLRN 166
                                    10        20      |  -|       40        50        60        70        80        90       100       110       120       130       140       150       160      
                                                     27  31

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: 4-helical cytokines (168)

Superfamily: 4-helical cytokines (168)

Family: Interferons/interleukin-10 (IL-10) (41)

Protein domain: Interferon-beta (4)

Human (Homo sapiens) [TaxId: 9606] (1)

1a	d1au1a_	A:
1b	d1au1b_	B:

Asymmetric/Biological Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

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Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Growth Hormone; Chain: A; (136)

Homologous Superfamily: [code=1.20.1250.10, no name defined] (130)

Human (Homo sapiens) (110)

1a	1au1B00	B:1-166
1b	1au1A00	A:1-166

(no "Pfam Domain" information available for 1AU1)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (IFNB_HUMAN | P01574)

molecular function
	GO:0008811	chloramphenicol O-acetyltransferase activity	Catalysis of the reaction: chloramphenicol + acetyl-CoA = chloramphenicol 3-acetate + CoA.
	GO:0005125	cytokine activity	Functions to control the survival, growth, differentiation and effector function of tissues and cells.
	GO:0005126	cytokine receptor binding	Interacting selectively and non-covalently with a cytokine receptor.
	GO:0005132	type I interferon receptor binding	Interacting selectively and non-covalently with an interferon-type I receptor, a heterodimeric complex composed of an alpha subunit (IFNAR1) and a beta subunit (IFNAR2).
biological process
	GO:0002312	B cell activation involved in immune response	The change in morphology and behavior of a mature or immature B cell during an immune response, resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific.
	GO:0030183	B cell differentiation	The process in which a precursor cell type acquires the specialized features of a B cell. A B cell is a lymphocyte of B lineage with the phenotype CD19-positive and capable of B cell mediated immunity.
	GO:0042100	B cell proliferation	The expansion of a B cell population by cell division. Follows B cell activation.
	GO:0002286	T cell activation involved in immune response	The change in morphology and behavior of a mature or immature T cell resulting from exposure to a mitogen, cytokine, chemokine, cellular ligand, or an antigen for which it is specific, leading to the initiation or perpetuation of an immune response.
	GO:0002250	adaptive immune response	An immune response mediated by cells expressing specific receptors for antigen produced through a somatic diversification process, and allowing for an enhanced secondary response to subsequent exposures to the same antigen (immunological memory).
	GO:0007596	blood coagulation	The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers.
	GO:0007166	cell surface receptor signaling pathway	A series of molecular signals initiated by activation of a receptor on the surface of a cell. The pathway begins with binding of an extracellular ligand to a cell surface receptor, or for receptors that signal in the absence of a ligand, by ligand-withdrawal or the activity of a constitutively active receptor. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
	GO:0071549	cellular response to dexamethasone stimulus	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 a dexamethasone stimulus.
	GO:0071359	cellular response to dsRNA	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 a double-stranded RNA stimulus.
	GO:0071360	cellular response to exogenous dsRNA	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 an exogenous double-stranded RNA stimulus.
	GO:0035458	cellular response to interferon-beta	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 an interferon-beta stimulus. Interferon-beta is a type I interferon.
	GO:0098586	cellular response to virus	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 a stimulus from a virus.
	GO:0006952	defense response	Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.
	GO:0042742	defense response to bacterium	Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
	GO:0051607	defense response to virus	Reactions triggered in response to the presence of a virus that act to protect the cell or organism.
	GO:0006959	humoral immune response	An immune response mediated through a body fluid.
	GO:0030101	natural killer cell activation	The change in morphology and behavior of a natural killer cell in response to a cytokine, chemokine, cellular ligand, or soluble factor.
	GO:0002323	natural killer cell activation involved in immune response	The change in morphology and behavior of a natural killer cell resulting from exposure a cytokine, chemokine, cellular ligand, or soluble factor, leading to the initiation or perpetuation of an immune response.
	GO:0045581	negative regulation of T cell differentiation	Any process that stops, prevents, or reduces the frequency, rate or extent of T cell differentiation.
	GO:2000552	negative regulation of T-helper 2 cell cytokine production	Any process that stops, prevents or reduces the frequency, rate or extent of T-helper 2 cell cytokine production.
	GO:0045071	negative regulation of viral genome replication	Any process that stops, prevents, or reduces the frequency, rate or extent of viral genome replication.
	GO:2001235	positive regulation of apoptotic signaling pathway	Any process that activates or increases the frequency, rate or extent of apoptotic signaling pathway.
	GO:0045089	positive regulation of innate immune response	Any process that activates or increases the frequency, rate or extent of the innate immune response, the organism's first line of defense against infection.
	GO:0033141	positive regulation of peptidyl-serine phosphorylation of STAT protein	Any process that activates or increases the frequency, rate or extent of the phosphorylation of a serine residue of a STAT (Signal Transducer and Activator of Transcription) protein.
	GO:0045944	positive regulation of transcription from RNA polymerase II promoter	Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0045343	regulation of MHC class I biosynthetic process	Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of MHC class I.
	GO:0060338	regulation of type I interferon-mediated signaling pathway	Any process that modulates the rate, frequency or extent of a type I interferon-mediated signaling pathway. A type I interferon-mediated signaling pathway is the series of molecular events generated as a consequence of a type I interferon binding to a cell surface receptor.
	GO:0043330	response to exogenous dsRNA	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an exogenous double-stranded RNA stimulus.
	GO:0009615	response to virus	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus from a virus.
	GO:0060337	type I interferon signaling pathway	A series of molecular signals initiated by the binding of a type I interferon to a receptor on the surface of a cell, and ending with regulation of a downstream cellular process, e.g. transcription. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families.
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.

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	1au1
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Description

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Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (10, 10)

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

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