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(-) Description

Title :  HUMAN 5-LIPOXYGENASE
 
Authors :  P. Arul Prakasam, P. P. Mathur, E. Selvakumar, S. Lakshminarayanan, R. Balamurugan, K. Ezhilmaran
Date :  16 Jul 05  (Deposition) - 02 Aug 05  (Release) - 02 Aug 05  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A
Keywords :  Human 5-Lipoxygenase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Arul Prakasam, P. P. Mathur, E. Selvakumar, S. Lakshminarayanan, R. Balamurugan, K. Ezhilmaran
Structure Of Human 5-Lipoxygenase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ARACHIDONATE 5-LIPOXYGENASE
    ChainsA
    EC Number1.13.11.34
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Synonym5-LIPOXYGENASE, 5-LO

 Structural Features

(-) Chains, Units

  
Theoretical Model 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Theoretical Model (1, 1)
No.NameCountTypeFull Name
1FE21Ligand/IonFE (II) ION

(-) Sites  (0, 0)

(no "Site" information available for 2ABV)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ABV)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2ABV)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Theoretical Model (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_028018E254KLOX5_HUMANPolymorphism2228065AE253K

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

(-) PROSITE Motifs  (4, 4)

Theoretical Model (4, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PLATPS50095 PLAT domain profile.LOX5_HUMAN2-118  1A:1-117
2LIPOXYGENASE_3PS51393 Lipoxygenase iron-binding catalytic domain profile.LOX5_HUMAN118-674  1A:117-673
3LIPOXYGENASE_1PS00711 Lipoxygenases iron-binding region signature 1.LOX5_HUMAN363-377  1A:362-376
4LIPOXYGENASE_2PS00081 Lipoxygenases iron-binding region signature 2.LOX5_HUMAN390-400  1A:389-399

(-) Exons   (14, 14)

Theoretical Model (14, 14)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003743911ENSE00001728506chr10:45869675-45869877203LOX5_HUMAN1-50501A:1-4949
1.2ENST000003743912ENSE00001732747chr10:45877931-45878129199LOX5_HUMAN51-117671A:50-11667
1.3ENST000003743913ENSE00001092824chr10:45891303-4589138482LOX5_HUMAN117-144281A:116-14328
1.4ENST000003743914ENSE00001761731chr10:45907639-45907761123LOX5_HUMAN144-185421A:143-18442
1.5aENST000003743915aENSE00001604968chr10:45919489-45919595107LOX5_HUMAN185-221371A:184-22037
1.6ENST000003743916ENSE00001678208chr10:45920408-45920580173LOX5_HUMAN221-278581A:220-27758
1.8ENST000003743918ENSE00001784698chr10:45924066-45924212147LOX5_HUMAN279-327491A:278-32649
1.9ENST000003743919ENSE00001669584chr10:45935878-45936081204LOX5_HUMAN328-395681A:327-39468
1.10aENST0000037439110aENSE00001092826chr10:45936792-4593687887LOX5_HUMAN396-424291A:395-42329
1.11bENST0000037439111bENSE00001092812chr10:45938486-45938664179LOX5_HUMAN425-484601A:424-48360
1.12cENST0000037439112cENSE00001191588chr10:45938864-45938985122LOX5_HUMAN484-525421A:483-52442
1.13aENST0000037439113aENSE00001703444chr10:45939176-45939276101LOX5_HUMAN525-558341A:524-55734
1.13dENST0000037439113dENSE00001092816chr10:45939564-45939734171LOX5_HUMAN559-615571A:558-61457
1.14ENST0000037439114ENSE00001125574chr10:45940956-45941561606LOX5_HUMAN616-674591A:615-67359

(-) Sequences/Alignments

Theoretical Model
   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:673
 aligned with LOX5_HUMAN | P09917 from UniProtKB/Swiss-Prot  Length:674

    Alignment length:673
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601       611       621       631       641       651       661       671   
           LOX5_HUMAN     2 PSYTVTVATGSQWFAGTDDYIYLSLVGSAGCSEKHLLDKPFYNDFERGAVDSYDVTVDEELGEIQLVRIEKRKYWLNDDWYLKYITLKTPHGDYIEFPCYRWITGDVEVVLRDGRAKLARDDQIHILKQHRRKELETRQKQYRWMEWNPGFPLSIDAKCHKDLPRDIQFDSEKGVDFVLNYSKAMENLFINRFMHMFQSSWNDFADFEKIFVKISNTISERVMNHWQEDLMFGYQFLNGCNPVLIRRCTELPEKLPVTTEMVECSLERQLSLEQEVQQGNIFIVDFELLDGIDANKTDPCTLQFLAAPICLLYKNLANKIVPIAIQLNQIPGDENPIFLPSDAKYDWLLAKIWVRSSDFHVHQTITHLLRTHLVSEVFGIAMYRQLPAVHPIFKLLVAHVRFTIAINTKAREQLICECGLFDKANATGGGGHVQMVQRAMKDLTYASLCFPEAIKARGMESKEDIPYYFYRDDGLLVWEAIRTFTAEVVDIYYEGDQVVEEDPELQDFVNDVYVYGMRGRKSSGFPKSVKSREQLSEYLTVVIFTASAQHAAVNFGQYDWCSWIPNAPPTMRAPPPTAKGVVTIEQIVDTLPDRGRSCWHLGAVWALSQFQENELFLGMYPEEHFIEKPVKEAMARFRKNLEAIVSVIAERNKKKQLPYYYLSPDRIPNSVAI 674
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..........eeeeeeee...eeeeeeee...........eeeeee........eeeeeeeee.......eeeeeeeee......eeeeeeeee.....eeee..............hhhhhhhhhhhhhhhh.ee........ee...hhhhhhhhhh.hhhhhhhh..hhhhhhh................hhhhhhhhh......hhhhhhhhh.hhhhhhhhhhhh......ee....................hhhhhhhhhhhh.eeeee.hhhh..................eeeeee.....eeeeeee..........ee....hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhhhhhh...hhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhh...............hhhhhhhhh.hhhhhhhhhhhhhhh...................hhhhhhhhhhhhhhhhhhhhhhhhhhhh................... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------K------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) PLAT  PDB: A:1-117 UniProt: 2-118                                                                                    ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------LIPOXYGENASE_1 ------------LIPOXYGENAS---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) --------------------------------------------------------------------------------------------------------------------LIPOXYGENASE_3  PDB: A:117-673 UniProt: 118-674                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: A:1-49 UniProt: 1-50 [INCOMPLETE] Exon 1.2  PDB: A:50-116 UniProt: 51-117                            --------------------------Exon 1.4  PDB: A:143-184 UniProt: 144-185 -----------------------------------Exon 1.6  PDB: A:220-277 UniProt: 221-278                 Exon 1.8  PDB: A:278-326 UniProt: 279-327        Exon 1.9  PDB: A:327-394 UniProt: 328-395                           Exon 1.10a  PDB: A:395-423   Exon 1.11b  PDB: A:424-483 UniProt: 425-484                 ----------------------------------------Exon 1.13a  PDB: A:524-557        Exon 1.13d  PDB: A:558-614 UniProt: 559-615              Exon 1.14  PDB: A:615-673 UniProt: 616-674                  Transcript 1 (1)
           Transcript 1 (2) -------------------------------------------------------------------------------------------------------------------Exon 1.3  PDB: A:116-143    ----------------------------------------Exon 1.5a  PDB: A:184-220            ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.12c  PDB: A:483-524                ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                 2abv A   1 PSYTVTVATGSQWFAGTDDYIYLSLVGSAGCSEKHLLDKPFYNDFERGAVDSYDVTVDEELGEIQLVRIEKRKYWLNDDWYLKYITLKTPHGDYIEFPCYRWITGDVEVVLRDGRAKLARDDQIHILKQHRRKELETRQKQYRWMEWNPGFPLSIDAKCHKDLPRDIQFDSEKGVDFVLNYSKAMENLFINRFMHMFQSSWNDFADFEKIFVKISNTISERVMNHWQEDLMFGYQFLNGCNPVLIRRCTELPEKLPVTTEMVECSLERQLSLEQEVQQGNIFIVDFELLDGIDANKTDPCTLQFLAAPICLLYKNLANKIVPIAIQLNQIPGDENPIFLPSDAKYDWLLAKIWVRSSDFHVHQTITHLLRTHLVSEVFGIAMYRQLPAVHPIFKLLVAHVRFTIAINTKAREQLICECGLFDKANATGGGGHVQMVQRAMKDLTYASLCFPEAIKARGMESKEDIPYYFYRDDGLLVWEAIRTFTAEVVDIYYEGDQVVEEDPELQDFVNDVYVYGMRGRKSSGFPKSVKSREQLSEYLTVVIFTASAQHAAVNFGQYDWCSWIPNAPPTMRAPPPTAKGVVTIEQIVDTLPDRGRSCWHLGAVWALSQFQENELFLGMYPEEHFIEKPVKEAMARFRKNLEAIVSVIAERNKKKQLPYYYLSPDRIPNSVAI 673
                                    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   

   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  (0, 0)

(no "SCOP Domain" information available for 2ABV)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ABV)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2ABV)

(-) Gene Ontology  (31, 31)

Theoretical Model(hide GO term definitions)
Chain A   (LOX5_HUMAN | P09917)
molecular function
    GO:0004051    arachidonate 5-lipoxygenase activity    Catalysis of the reaction: arachidonate + O2 = (6E,8Z,11Z,14Z)-(5S)-5-hydroperoxycosa-6,8,11,14-tetraenoate.
    GO:0051213    dioxygenase activity    Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016702    oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen    Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from one donor, and two oxygen atoms is incorporated into a donor.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0002526    acute inflammatory response    Inflammation which comprises a rapid, short-lived, relatively uniform response to acute injury or antigenic challenge and is characterized by accumulations of fluid, plasma proteins, and granulocytic leukocytes. An acute inflammatory response occurs within a matter of minutes or hours, and either resolves within a few days or becomes a chronic inflammatory response.
    GO:0019369    arachidonic acid metabolic process    The chemical reactions and pathways involving arachidonic acid, a straight chain fatty acid with 20 carbon atoms and four double bonds per molecule. Arachidonic acid is the all-Z-(5,8,11,14)-isomer.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0019370    leukotriene biosynthetic process    The chemical reactions and pathways resulting in the formation of leukotriene, a pharmacologically active substance derived from a polyunsaturated fatty acid, such as arachidonic acid.
    GO:0006691    leukotriene metabolic process    The chemical reactions and pathways involving leukotriene, a pharmacologically active substance derived from a polyunsaturated fatty acid, such as arachidonic acid.
    GO:0002540    leukotriene production involved in inflammatory response    The synthesis or release of any leukotriene following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels.
    GO:2001300    lipoxin metabolic process    The chemical reactions and pathways involving a lipoxin. A lipoxin is a non-classic eicosanoid and signalling molecule that has four conjugated double bonds and is derived from arachidonic acid.
    GO:0019372    lipoxygenase pathway    The chemical reactions and pathways by which an unsaturated fatty acid (such as arachidonic acid or linolenic acid) is converted to other compounds, and in which the first step is hydroperoxide formation catalyzed by lipoxygenase.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0045907    positive regulation of vasoconstriction    Any process that activates or increases the frequency, rate or extent of vasoconstriction.
    GO:0055093    response to hyperoxia    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 indicating increased oxygen tension.
    GO:0007584    response to nutrient    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 nutrient stimulus.
    GO:0019233    sensory perception of pain    The series of events required for an organism to receive a painful stimulus, convert it to a molecular signal, and recognize and characterize the signal. Pain is medically defined as the physical sensation of discomfort or distress caused by injury or illness, so can hence be described as a harmful stimulus which signals current (or impending) tissue damage. Pain may come from extremes of temperature, mechanical damage, electricity or from noxious chemical substances. This is a neurological process.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0030425    dendrite    A neuron projection that has a short, tapering, often branched, morphology, receives and integrates signals from other neurons or from sensory stimuli, and conducts a nerve impulse towards the axon or the cell body. In most neurons, the impulse is conveyed from dendrites to axon via the cell body, but in some types of unipolar neuron, the impulse does not travel via the cell body.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005635    nuclear envelope    The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
    GO:0005641    nuclear envelope lumen    The region between the two lipid bilayers of the nuclear envelope; 20-40 nm wide.
    GO:0016363    nuclear matrix    The dense fibrillar network lying on the inner side of the nuclear membrane.
    GO:0031965    nuclear membrane    Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0042383    sarcolemma    The outer membrane of a muscle cell, consisting of the plasma membrane, a covering basement membrane (about 100 nm thick and sometimes common to more than one fiber), and the associated loose network of collagen fibers.

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 Related Entries

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

UniProtKB/Swiss-Prot
        LOX5_HUMAN | P099173o8y 3v92 3v98 3v99

(-) Related Entries Specified in the PDB File

2abt HUMAN 15-LIPOXYGENASE
2abu HUMAN 12-LIPOXYGENASE