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(-) Description

Title :  CRYSTALLOGRAPHIC STRUCTURE OF DUCK OVOTRANSFERRIN AT 2.3 ANGSTROMS RESOLUTION
 
Authors :  A. Rawas, H. Muirhead
Date :  03 Aug 95  (Deposition) - 08 Mar 96  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym./Biol. Unit :  A
Keywords :  Iron Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Rawas, H. Muirhead, J. Williams
Structure Of Diferric Duck Ovotransferrin At 2. 35 A Resolution.
Acta Crystallogr. , Sect. D V. 52 631 1996
PubMed-ID: 15299626  |  Reference-DOI: 10.1107/S0907444996000212
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DUCK OVOTRANSFERRIN
    Cellular Location: EGG WHITE
    Chains: A
    Organism Scientific: ANAS PLATYRHYNCHOS
    Organism Taxid: 8839
    Synonym: DOT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1CO32Ligand/IonCARBONATE ION
2FE2Ligand/IonFE (III) ION
3FUC1Ligand/IonALPHA-L-FUCOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:470 , ASN A:473 , SER A:664 , SER A:667 , NAG A:692 , HOH A:772BINDING SITE FOR RESIDUE NAG A 691
2AC2SOFTWAREALA A:663 , NAG A:691 , FUC A:693 , HOH A:728BINDING SITE FOR RESIDUE NAG A 692
3AC3SOFTWARENAG A:692 , HOH A:764 , HOH A:837BINDING SITE FOR RESIDUE FUC A 693
4AC4SOFTWAREASP A:60 , TYR A:92 , TYR A:191 , HIS A:250 , CO3 A:689BINDING SITE FOR RESIDUE FE A 687
5AC5SOFTWAREASP A:395 , TYR A:431 , TYR A:524 , HIS A:592 , CO3 A:690BINDING SITE FOR RESIDUE FE A 688
6AC6SOFTWAREASP A:60 , TYR A:92 , THR A:117 , ARG A:121 , ALA A:123 , GLY A:124 , TYR A:191 , HIS A:250 , FE A:687BINDING SITE FOR RESIDUE CO3 A 689
7AC7SOFTWAREASP A:395 , TYR A:431 , THR A:456 , ARG A:460 , THR A:461 , ALA A:462 , GLY A:463 , TYR A:524 , HIS A:592 , FE A:688BINDING SITE FOR RESIDUE CO3 A 690
8FECAUTHORFE A:688 , ASP A:395 , TYR A:431 , TYR A:524 , HIS A:592 , ARG A:460 , CO3 A:690IRON BINDING SITE IN THE C-LOBE
9FENAUTHORFE A:687 , ASP A:60 , TYR A:92 , TYR A:191 , HIS A:250 , ARG A:121 , CO3 A:689IRON BINDING SITE IN THE N-LOBE

(-) SS Bonds  (15, 15)

Asymmetric/Biological Unit
No.Residues
1A:10 -A:45
2A:20 -A:36
3A:115 -A:197
4A:160 -A:174
5A:171 -A:182
6A:228 -A:242
7A:348 -A:380
8A:358 -A:371
9A:405 -A:680
10A:421 -A:643
11A:454 -A:530
12A:478 -A:671
13A:488 -A:502
14A:499 -A:513
15A:570 -A:584

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ala A:70 -Pro A:71

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1DOT)

(-) PROSITE Motifs  (4, 7)

Asymmetric/Biological Unit (4, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1TRANSFERRIN_LIKE_4PS51408 Transferrin-like domain profile.TRFE_ANAPL7-333
345-670		  2A:7-333
A:345-670
2TRANSFERRIN_LIKE_1PS00205 Transferrin-like domain signature 1.TRFE_ANAPL92-101
431-440		  2A:92-101
A:431-440
3TRANSFERRIN_LIKE_2PS00206 Transferrin-like domain signature 2.TRFE_ANAPL191-207
524-539		  2A:191-207
A:524-539
4TRANSFERRIN_LIKE_3PS00207 Transferrin-like domain signature 3.TRFE_ANAPL223-253  1A:223-253

(-) Exons   (0, 0)

(no "Exon" information available for 1DOT)

(-) Sequences/Alignments

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:686
 aligned with TRFE_ANAPL | P56410 from UniProtKB/Swiss-Prot  Length:686

    Alignment length:686
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680      
           TRFE_ANAPL     1 APPKTTVRWCTISSAEEKKCNSLKDHMQQERVTLSCVQKATYLDCIKAISNNEADAISLDGGQVFEAGLAPYKLKPIAAEVYERSGGSTTSYYAVAVVKKGTDFMIKDLRGKTSCHTGLGRSAGWNIPIGTLIHREDIEWEGIESGISEQAVAKFFSASCVPGATIEQKLCRQCKGDAKTKCLRNGPYSGYSGAFQCLKDGKGDVAFVKHTTVQENAPEEKDEYELLCLDGSRQPVDSYKTCNWARVAAHAVVARDDSKIDDIWSFLGMQAYSLGVDTTSDFHLFGPPGKKDPVLKDLLFKDSAIMLKRVPELMDSQLYLGFEYYSAIQSLRKDQLTVGPRENKIQWCAVGKDEKSKCDRWSVVSNGEVECTILDDNKDCIVKITKGEADAISLDGGFVYTAGVCGLVPVVGESYEDETQCSKDEEQPAYYFAVAVVKKSSAITWNNLQGKKSCHTAVGRTAGWNIPMGLIHNKTGSCDFDDYFSEGCAPGSPPNSRLCKLCQGSGENLLEKCVASSHEKYYGYTGALRCLVEQGDVAFIKHSTVGENVSGSNKDDWAKGLTRDDFELLCTNGKRAKTMDYKTCHLAKVPTHAVVARPEKANKIRELLEGQEKLFGLHGTEKERFMMFQSQTKDLLFKALTKCLVKLRQGITYKEFLGDEYYASVASLNTCNPSDLLQVCTFLEDK 686
               SCOP domains d1dota1 A:1-334 Ovotransferrin                                                                                                                                                                                                                                                                                                                d1dota2 A:335-686 Ovotransferrin                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1dotA01 A:1-91,A:251-339 Periplasmic binding protein-like II                               1dotA02 A:92-250 Periplasmic binding protein-like II                                                                                                           1dotA01 A:1-91,A:251-339 Periplasmic binding protein-like II                             1dotA03 A:340-433,A:590-686 Periplasmic binding protein-like II                               1dotA04 A:434-589 Periplasmic binding protein-like II                                                                                                       1dotA03 A:340-433,A:590-686 Periplasmic binding protein-like II                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeee..hhhhhhhhhhhhh......eeeeeee..hhhhhhhhh....eeeee.hhhhhhhh......eeeeeee.........eeeeeeee.......hhhh..eeeee.....hhhhhhhhhhhhhh.............hhhhhhh..eeee............................hhhhhhhhhhh....eeee..hhhhhh.......eeeee...eee..........eeee..eeeee......hhhhhhhhhhhhh..............................eeee......hhhhhh.hhhhhhhhhhh............eeeeeeehhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh...eeeeeehhhhhhhhh...eeeee..................eeeeeee........hh...eeeee......hhhhhhhhhhhhhh.....hhh...ee..................................hhhhhhhhhhhh..eeee..hhhhhhh.................eeee...eee.........eeee..eeeee...hhhhhhhhhhhhhhh............................eeeee.....hhhhh.hhhhhhhhhhhhh...hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ------TRANSFERRIN_LIKE_4  PDB: A:7-333 UniProt: 7-333                                                                                                                                                                                                                                                                                        -----------TRANSFERRIN_LIKE_4  PDB: A:345-670 UniProt: 345-670                                                                                                                                                                                                                                                                                   ---------------- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------TRANSFERRI-----------------------------------------------------------------------------------------TRANSFERRIN_LIKE_---------------TRANSFERRIN_LIKE_3             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TRANSFERRI-----------------------------------------------------------------------------------TRANSFERRIN_LIKE--------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dot A   1 APPKTTVRWCTISSAEEKKCNSLKDHMQQERVTLSCVQKATYLDCIKAISNNEADAISLDGGQVFEAGLAPYKLKPIAAEVYERSGGSTTSYYAVAVVKKGTDFMIKDLRGKTSCHTGLGRSAGWNIPIGTLIHREDIEWEGIESGISEQAVAKFFSASCVPGATIEQKLCRQCKGDAKTKCLRNGPYSGYSGAFQCLKDGKGDVAFVKHTTVQENAPEEKDEYELLCLDGSRQPVDSYKTCNWARVAAHAVVARDDSKIDDIWSFLGMQAYSLGVDTTSDFHLFGPPGKKDPVLKDLLFKDSAIMLKRVPELMDSQLYLGFEYYSAIQSLRKDQLTVGPRENKIQWCAVGKDEKSKCDRWSVVSNGEVECTILDDNKDCIVKITKGEADAISLDGGFVYTAGVCGLVPVVGESYEDETQCSKDEEQPAYYFAVAVVKKSSAITWNNLQGKKSCHTAVGRTAGWNIPMGLIHNKTGSCDFDDYFSEGCAPGSPPNSRLCKLCQGSGENLLEKCVASSHEKYYGYTGALRCLVEQGDVAFIKHSTVGENVSGSNKDDWAKGLTRDDFELLCTNGKRAKTMDYKTCHLAKVPTHAVVARPEKANKIRELLEGQEKLFGLHGTEKERFMMFQSQTKDLLFKALTKCLVKLRQGITYKEFLGDEYYASVASLNTCNPSDLLQVCTFLEDK 686
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (TRFE_ANAPL | P56410)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    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: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.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        TRFE_ANAPL | P56410: 1aov 1gv8 1gvc 1ovb

(-) Related Entries Specified in the PDB File

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