1H76 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   THE CRYSTAL STRUCTURE OF DIFERRIC PORCINE SERUM TRANSFERRIN

Authors :   D. R. Hall, J. M. Hadden, G. A. Leonard, S. Bailey, M. Neu, M. Winn, P. F. Lindley

Date :   03 Jul 01 (Deposition) - 15 Jan 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym./Biol. Unit : A

Keywords :   Iron Transport, Glycoprotein, Metal-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. R. Hall, J. M. Hadden, G. A. Leonard, S. Bailey, M. Neu, M. Winn, P. F. Lindley
The Crystal And Molecular Structures Of Diferric Porcine And Rabbit Serum Transferrins At Resolutions Of 2. 15 And 2. 60A, Respectively
Acta Crystallogr. , Sect. D V. 58 70 2002
PubMed-ID: 11752780 | Reference-DOI: 10.1107/S0907444901017309

Molecule 1 - SEROTRANSFERRIN
	Chains	:	A
	Organism Common	:	PIG
	Organism Scientific	:	SUS SCROFA
	Organism Taxid	:	9823
	Other Details	:	BLOOD
	Synonym	:	SIDEROPHILIN, BETA-1-METAL BINDING GLOBULIN

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 5)

No.	Name	Count	Type	Full Name
1	CO3	2	Ligand/Ion	CARBONATE ION
2	FE	2	Ligand/Ion	FE (III) ION
3	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:497	BINDING SITE FOR RESIDUE NAG A1688
2	AC2	SOFTWARE	ASP A:62 , TYR A:94 , THR A:119 , ARG A:123 , ALA A:125 , GLY A:126 , TYR A:192 , HIS A:253 , FE A:702	BINDING SITE FOR RESIDUE CO3 A 700
3	AC3	SOFTWARE	ASP A:396 , TYR A:431 , THR A:458 , ARG A:462 , THR A:463 , ALA A:464 , GLY A:465 , TYR A:526 , HIS A:594 , FE A:703	BINDING SITE FOR RESIDUE CO3 A 701
4	AC4	SOFTWARE	ASP A:62 , TYR A:94 , TYR A:192 , HIS A:253 , CO3 A:700	BINDING SITE FOR RESIDUE FE A 702
5	AC5	SOFTWARE	ASP A:396 , TYR A:431 , TYR A:526 , HIS A:594 , CO3 A:701	BINDING SITE FOR RESIDUE FE A 703

Asymmetric/Biological Unit

No.	Residues
1	A:9	-	A:47
2	A:19	-	A:38
3	A:117	-	A:198
4	A:157	-	A:173
5	A:160	-	A:183
6	A:170	-	A:181
7	A:231	-	A:245
8	A:343	-	A:605
9	A:349	-	A:381
10	A:359	-	A:372
11	A:406	-	A:682
12	A:423	-	A:646
13	A:456	-	A:532
14	A:480	-	A:673
15	A:490	-	A:504
16	A:501	-	A:515
17	A:572	-	A:586
18	A:624	-	A:629

Asymmetric/Biological Unit

No.	Residues
1	Ala A:72	-	Pro A:73
2	Glu A:140	-	Pro A:141
3	Lys A:143	-	Pro A:144

Asymmetric/Biological Unit (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_TRFE_PIG_001 *	K	308	R	TRFE_PIG	---	---	A	K	308	R
	* ID not provided by source

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

Asymmetric/Biological Unit (4, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRANSFERRIN_LIKE_4	PS51408	Transferrin-like domain profile.	TRFE_PIG	6-332 346-672	2	A:6-332 A:346-672
2	TRANSFERRIN_LIKE_1	PS00205	Transferrin-like domain signature 1.	TRFE_PIG	94-103 431-440	2	A:94-103 A:431-440
3	TRANSFERRIN_LIKE_2	PS00206	Transferrin-like domain signature 2.	TRFE_PIG	192-208 526-541	2	A:192-208 A:526-541
4	TRANSFERRIN_LIKE_3	PS00207	Transferrin-like domain signature 3.	TRFE_PIG	226-256 567-597	2	A:226-256 A:567-597

(no "Exon" information available for 1H76)

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:677
 aligned with TRFE_PIG | P09571 from UniProtKB/Swiss-Prot  Length:696

    Alignment length:685
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682     
             TRFE_PIG     3 QKTVRWCTISNQEANKCSSFRENMSKAVKNGPLVSCVKKSSYLDCIKAIRDKEADAVTLDAGLVFEAGLAPYNLKPVVAEFYGQKDNPQTHYYAVAVVKKGSNFQWNQLQGKRSCHTGLGRSAGWIIPMGLLYDQLPEPRKPIEKAVASFFSSSCVPCADPVNFPKLCQQCAGKGAEKCACSNHEPYFGYAGAFNCLKEDAGDVAFVKHSTVLENLPDKADRDQYELLCRDNTRRPVDDYENCYLAQVPSHAVVARSVDGQEDSIWELLNQAQEHFGRDKSPDFQLFSSSHGKDLLFKDSANGFLKIPSKMDSSLYLGYQYVTALRNLREEISPDSSKNECKKVRWCAIGHEETQKCDAWSINSGGKIECVSAENTEDCIAKIVKGEADAMSLDGGYIYIAGKCGLVPVLAENYKTEGENCVNTPEKGYLAVAVVKKSSGPDLNWNNLKGKKSCHTAVDRTAGWNIPMGLLYNKINSCKFDQFFGEGCAPGSQRNSSLCALCIGSERAPGRECLANNHERYYGYTGAFRCLVEKGDVAFVKDQVVQQNTDGKNKDDWAKDLKQMDFELLCQNGAREPVDNAENCHLARAPNHAVVARDDKVTCVAEELLKQQAQFGRHVTDCSSSFCMFKSNTKDLLFRDDTQCLARVGKTTYESYLGADYITAVANLRKCSTSKLLEACTFHSA 687
               SCOP domains d1h76a1 A:3-333 Transferrin                                                                                                                                                                                                                                                                                                                --------d1h76a2 A:342-687 Transferrin                                                                                                                                                                                                                                                                                                                              SCOP domains
               CATH domains 1h76A01 A:3-93,A:251-342 Periplasmic binding protein-like II                               1h76A02 A:94-250 Periplasmic binding protein-like II                                                                                                         1h76A01 A:3-93,A:251-342 Periplasmic binding protein-like II                                1h76A03 A:343-430,A:592-686 Periplasmic binding protein-like II                         1h76A04 A:431-591 Periplasmic binding protein-like II                                                                                                            1h76A03 A:343-430,A:592-686 Periplasmic binding protein-like II                                - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.hhhhhhhhhhhhhhhhhhh....eeeeee..hhhhhhhhhhh.....eeehhhhhhhhh.....eeeeeeee.........eeeeeeeee.....hhhhh...eeee........hhhhhhhhhhhh.....hhhhhhhhhh.eee........hhhhhh....hhhhh.........hhhhhhhhhhhh....eeeee.hhhhhhh....hhh.eeee.....eee.hhhhhh..eeee..eeeee....hhhhhhhhhhhhhhhhh.........................eeee.....hhhhhhhhhhhhhhhhhhh.--------....eeeeeehhhhhhhhhhhhhhh...eeeeee.hhhhhhhhhhh.....eeehhhhhhhhhhh..eeeeeee......hhhhh....eeeeeeee.......hhhhh....eee........hhhhhhhhhhhhh..hhhhhh...........hhhhh.....................hhhhhhhhhhhhh..eeeee.hhhhhh.............hhh.eeee.....eee.hhhhhh..eee...eeeehhhhhhhhhhhhhhhhhhhh...........................eeee....hhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---TRANSFERRIN_LIKE_4  PDB: A:6-332 UniProt: 6-332                                                                                                                                                                                                                                                                                        -------------TRANSFERRIN_LIKE_4  PDB: A:346-672 UniProt: 346-672                                                                                                                                                                                                                                                                                    --------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------TRANSFERRI----------------------------------------------------------------------------------------TRANSFERRIN_LIKE_-----------------TRANSFERRIN_LIKE_3             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TRANSFERRI-------------------------------------------------------------------------------------TRANSFERRIN_LIKE-------------------------TRANSFERRIN_LIKE_3             ------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1h76 A   3 QKTVRWCTISNQEANKCSSFRENMSKAVKNGPLVSCVKKSSYLDCIKAIRDKEADAVTLDAGLVFEAGLAPYNLKPVVAEFYGQKDNPQTHYYAVAVVKKGSNFQWNQLQGKRSCHTGLGRSAGWIIPMGLLYDQLPEPRKPIEKAVASFFSSSCVPCADPVNFPKLCQQCAGKGAEKCACSNHEPYFGYAGAFNCLKEDAGDVAFVKHSTVLENLPDKADRDQYELLCRDNTRRPVDDYENCYLAQVPSHAVVARSVDGQEDSIWELLNQAQEHFGRDKSPDFQLFSSSHGKDLLFKDSANGFLKIPSKMDSSLYLGYQYVTALRNLREE--------ECKKVRWCAIGHEETQKCDAWSINSGGKIECVSAENTEDCIAKIVKGEADAMSLDGGYIYIAGKCGLVPVLAENYKTEGENCVNTPEKGYLAVAVVKKSSGPDLNWNNLKGKKSCHTAVDRTAGWNIPMGLLYNKINSCKFDQFFGEGCAPGSQRNSSLCALCIGSERAPGRECLANNHERYYGYTGAFRCLVEKGDVAFVKDQVVQQNTDGKNKDDWAKDLKQMDFELLCQNGAREPVDNAENCHLARAPNHAVVARDDKVTCVAEELLKQQAQFGRHVTDCSSSFCMFKSNTKDLLFRDDTQCLARVGKTTYESYLGADYITAVANLRKCSTSKLLEACTFHSA 687
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332|      342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682     
                                                                                                                                                                                                                                                                                                                                                                    333      342

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) (23833)

Fold: Periplasmic binding protein-like II (813)

Superfamily: Periplasmic binding protein-like II (813)

Family: Transferrin (82)

Protein domain: Transferrin (23)

Pig (Sus scrofa) [TaxId: 9823] (1)

1a	d1h76a1	A:3-333
1b	d1h76a2	A:342-687

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: D-Maltodextrin-Binding Protein; domain 2 (600)

Homologous Superfamily: Periplasmic binding protein-like II (486)

Pig (Sus scrofa) (1)

1a	1h76A02	A:94-250
1b	1h76A04	A:431-591
1c	1h76A01	A:3-93,A:251-342
1d	1h76A03	A:343-430,A:592-686

(no "Pfam Domain" information available for 1H76)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (TRFE_PIG | P09571)

molecular function
	GO:0008199	ferric iron binding	Interacting selectively and non-covalently with ferric iron, Fe(III).
	GO:0015091	ferric iron transmembrane transporter activity	Enables the transfer of ferric iron (Fe(III) or Fe3+) ions from one side of a membrane to the other.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0006879	cellular iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions at the level of a cell.
	GO:0015682	ferric iron transport	The directed movement of ferric iron (Fe(III) or Fe3+) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0055072	iron ion homeostasis	Any process involved in the maintenance of an internal steady state of iron ions within an organism or cell.
	GO:0006826	iron ion transport	The directed movement of iron (Fe) ions into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	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:0005623	cell	The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.
	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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	Cis Peptide Bonds
		Ala A:72 - Pro A:73	[ RasMol ]
		Glu A:140 - Pro A:141	[ RasMol ]
		Lys A:143 - Pro A:144	[ RasMol ]

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	1h76
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 5)

Sites (5, 5)

SS Bonds (18, 18)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

PROSITE Motifs (4, 8)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 2)

CATH Domains (1, 4)

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