1F6R - JenaLib

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

Asym./Biol. Unit (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF APO-BOVINE ALPHA-LACTALBUMIN

Authors :   E. D. Chrysina, K. Brew, K. R. Acharya

Date :   23 Jun 00 (Deposition) - 13 Dec 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym./Biol. Unit : A,B,C,D,E,F

Keywords :   Calcium Binding Protein, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   E. D. Chrysina, K. Brew, K. R. Acharya
Crystal Structures Of Apo- And Holo-Bovine Alpha-Lactalbumin At 2. 2-A Resolution Reveal An Effect Of Calcium On Inter-Lobe Interactions.
J. Biol. Chem. V. 275 37021 2000
PubMed-ID: 10896943 | Reference-DOI: 10.1074/JBC.M004752200
(for further references see the PDB file header)

Molecule 1 - ALPHA-LACTALBUMIN
	Chains	:	A, B, C, D, E, F
	Organism Common	:	CATTLE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913

		1	2	3	4	5	6
Asymmetric/Biological Unit	:	A	B	C	D	E	F

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1F6R)

(no "Site" information available for 1F6R)

Asymmetric/Biological Unit

No.	Residues
1	A:6	-	A:120
2	A:28	-	A:111
3	A:61	-	A:77
4	A:73	-	A:91
5	B:6	-	B:120
6	B:28	-	B:111
7	B:61	-	B:77
8	B:73	-	B:91
9	C:6	-	C:120
10	C:28	-	C:111
11	C:61	-	C:77
12	C:73	-	C:91
13	D:6	-	D:120
14	D:28	-	D:111
15	D:61	-	D:77
16	D:73	-	D:91
17	E:6	-	E:120
18	E:28	-	E:111
19	E:61	-	E:77
20	E:73	-	E:91
21	F:6	-	F:120
22	F:28	-	F:111
23	F:61	-	F:77
24	F:73	-	F:91

(no "Cis Peptide Bond" information available for 1F6R)

Asymmetric/Biological Unit (1, 6)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_LALBA_BOVIN_001 *	R	29	Q	LALBA_BOVIN	---	---	A/B/C/D/E/F	R	10	Q
	* ID not provided by source

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

Asymmetric/Biological Unit (2, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LACTALBUMIN_LYSOZYME_2	PS51348	Alpha-lactalbumin / lysozyme C family profile.	LALBA_BOVIN	20-142	6	A:1-123 B:1-122 C:1-121 D:1-120 E:1-121 F:1-120
2	LACTALBUMIN_LYSOZYME_1	PS00128	Alpha-lactalbumin / lysozyme C signature.	LALBA_BOVIN	92-110	6	A:73-91 B:73-91 C:73-91 D:73-91 E:73-91 F:73-91

Asymmetric/Biological Unit (4, 24)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENSBTAT00000007701	1	ENSBTAE00000061891	chr5:34386814-34386973	160	LALBA_BOVIN	1-45	45	6	A:1-26 B:1-26 C:1-26 D:1-26 E:1-26 F:1-26	26 26 26 26 26 26
1.2	ENSBTAT00000007701	2	ENSBTAE00000061892	chr5:34387295-34387453	159	LALBA_BOVIN	45-98	54	6	A:26-79 B:26-79 C:26-79 D:26-79 E:26-79 F:26-79	54 54 54 54 54 54
1.3	ENSBTAT00000007701	3	ENSBTAE00000061893	chr5:34387927-34388002	76	LALBA_BOVIN	98-123	26	6	A:79-104 B:79-104 C:79-104 D:79-104 E:79-104 F:79-104	26 26 26 26 26 26
1.4	ENSBTAT00000007701	4	ENSBTAE00000061894	chr5:34388507-34388835	329	LALBA_BOVIN	123-142	20	6	A:104-123 B:104-122 C:104-121 D:104-120 E:104-121 F:104-120	20 19 18 17 18 17

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:123
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:123
                                    29        39        49        59        69        79        89        99       109       119       129       139   
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCEKL 142
               SCOP domains d1f6ra_ A: alpha-Lactalbumin                                                                                                SCOP domains
               CATH domains 1f6rA00 A:1-123  [code=1.10.530.10, no name defined]                                                                        CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------Q----------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: A:1-123 UniProt: 20-142                                                                        PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM-------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: A:1-26     ----------------------------------------------------Exon 1.3  PDB: A:79-104   ------------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: A:26-79 UniProt: 45-98                 ------------------------Exon 1.4             Transcript 1 (2)
                 1f6r A   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCEKL 123
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain B from PDB  Type:PROTEIN  Length:122
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:122
                                    29        39        49        59        69        79        89        99       109       119       129       139  
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCEK 141
               SCOP domains d1f6rb_ B: alpha-Lactalbumin                                                                                               SCOP domains
               CATH domains 1f6rB00 B:1-122  [code=1.10.530.10, no name defined]                                                                       CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh... Sec.struct. author
                 SAPs(SNPs) ---------Q---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: B:1-122 UniProt: 20-142                                                                       PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: B:1-26     ----------------------------------------------------Exon 1.3  PDB: B:79-104   ------------------ Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: B:26-79 UniProt: 45-98                 ------------------------Exon 1.4            Transcript 1 (2)
                 1f6r B   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCEK 122
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain C from PDB  Type:PROTEIN  Length:121
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:121
                                    29        39        49        59        69        79        89        99       109       119       129       139 
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCE 140
               SCOP domains d1f6rc_ C: alpha-Lactalbumin                                                                                              SCOP domains
               CATH domains 1f6rC00 C:1-121  [code=1.10.530.10, no name defined]                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------Q--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: C:1-121 UniProt: 20-142                                                                      PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM------------------------------ PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: C:1-26     ----------------------------------------------------Exon 1.3  PDB: C:79-104   ----------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: C:26-79 UniProt: 45-98                 ------------------------Exon 1.4           Transcript 1 (2)
                 1f6r C   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCE 121
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain D from PDB  Type:PROTEIN  Length:120
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:120
                                    29        39        49        59        69        79        89        99       109       119       129       139
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLC 139
               SCOP domains d1f6rd_ D: alpha-Lactalbumin                                                                                             SCOP domains
               CATH domains 1f6rD00 D:1-120  [code=1.10.530.10, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ---------Q-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: D:1-120 UniProt: 20-142                                                                     PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM----------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: D:1-26     ----------------------------------------------------Exon 1.3  PDB: D:79-104   ---------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: D:26-79 UniProt: 45-98                 ------------------------Exon 1.4          Transcript 1 (2)
                 1f6r D   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLC 120
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain E from PDB  Type:PROTEIN  Length:121
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:121
                                    29        39        49        59        69        79        89        99       109       119       129       139 
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCE 140
               SCOP domains d1f6re_ E: alpha-Lactalbumin                                                                                              SCOP domains
               CATH domains 1f6rE00 E:1-121  [code=1.10.530.10, no name defined]                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------Q--------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: E:1-121 UniProt: 20-142                                                                      PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM------------------------------ PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: E:1-26     ----------------------------------------------------Exon 1.3  PDB: E:79-104   ----------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: E:26-79 UniProt: 45-98                 ------------------------Exon 1.4           Transcript 1 (2)
                 1f6r E   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLCE 121
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain F from PDB  Type:PROTEIN  Length:120
 aligned with LALBA_BOVIN | P00711 from UniProtKB/Swiss-Prot  Length:142

    Alignment length:120
                                    29        39        49        59        69        79        89        99       109       119       129       139
          LALBA_BOVIN    20 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLC 139
               SCOP domains d1f6rf_ F: alpha-Lactalbumin                                                                                             SCOP domains
               CATH domains 1f6rF00 F:1-120  [code=1.10.530.10, no name defined]                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eee....eee....ee....................hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------Q-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LACTALBUMIN_LYSOZYME_2  PDB: F:1-120 UniProt: 20-142                                                                     PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------LACTALBUMIN_LYSOZYM----------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: F:1-26     ----------------------------------------------------Exon 1.3  PDB: F:79-104   ---------------- Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.2  PDB: F:26-79 UniProt: 45-98                 ------------------------Exon 1.4          Transcript 1 (2)
                 1f6r F   1 EQLTKCEVFRELKDLKGYGGVSLPEWVCTTFHTSGYDTQAIVQNNDSTEYGLFQINNKIWCKDDQNPHSSNICNISCDKFLDDDLTDDIMCVKKILDKVGINYWLAHKALCSEKLDQWLC 120
                                    10        20        30        40        50        60        70        80        90       100       110       120

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Lysozyme-like (1361)

Superfamily: Lysozyme-like (1361)

Family: C-type lysozyme (738)

Protein domain: alpha-Lactalbumin (25)

Cow (Bos taurus) [TaxId: 9913] (3)

1a	d1f6ra_	A:
1b	d1f6rb_	B:
1c	d1f6rc_	C:
1d	d1f6rd_	D:
1e	d1f6re_	E:
1f	d1f6rf_	F:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Lysozyme (1131)

Homologous Superfamily: [code=1.10.530.10, no name defined] (605)

Cattle (Bos taurus) (4)

1a	1f6rA00	A:1-123
1b	1f6rB00	B:1-122
1c	1f6rD00	D:1-120
1d	1f6rF00	F:1-120
1e	1f6rC00	C:1-121
1f	1f6rE00	E:1-121

(no "Pfam Domain" information available for 1F6R)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D,E,F (LALBA_BOVIN | P00711)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0004461	lactose synthase activity	Catalysis of the reaction: UDP-galactose + D-glucose = UDP + lactose.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0005989	lactose biosynthetic process	The chemical reactions and pathways resulting in the formation of lactose, the disaccharide galactopyranosyl-glucose.
	GO:1903496	response to 11-deoxycorticosterone	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 11-deoxycorticosterone stimulus.
	GO:1903494	response to dehydroepiandrosterone	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 dehydroepiandrosterone stimulus.
	GO:0032355	response to estradiol	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 stimulus by estradiol, a C18 steroid hormone hydroxylated at C3 and C17 that acts as a potent estrogen.
	GO:0032570	response to progesterone	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 progesterone stimulus.
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.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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(no "Sites" information available for 1f6r)

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1f6r)

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Access by PDB/NDB ID
	1f6r
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
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	LALBA_BOVIN \| P00711
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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	LALBA_BOVIN \| P00711
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UniProtKB/Swiss-Prot
	LALBA_BOVIN \| P00711	:	1f6s 1hfz 2g4n

1a4v	1A4V CONTAINS HUMAN ALPHA-LACTALBUMIN
1alc	1ALC CONTAINS BABOON ALPHA-LACTALBUMIN
1f6s	1F6S CONTAINS THE HOLO FORM OF THE SAME PROTEIN
1hfx	1HFX CONTAINS GUINEA PIG ALPHA-LACTALBUMIN
1hfy	1HFY CONTAINS GOAT ALPHA-LACTALBUMIN
1hfz	1HFZ CONTAINS RECOMBINANT BOVINE ALPHA-LACTALBUMIN

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (24, 24)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 6)

PROSITE Motifs (2, 12)

Exons (4, 24)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 6)

CATH Domains (1, 6)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

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