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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN AIM2 PYD DOMAIN WITH MBP FUSION
 
Authors :  T. C. Jin, A. Perry, P. Smith, T. S. Xiao
Date :  04 Jan 12  (Deposition) - 16 Jan 13  (Release) - 05 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.07
Chains :  Asym./Biol. Unit :  A
Keywords :  Mbp/Pyd/Dd, Signal Transduction, Inflammasome, Sugar Binding Protein, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Jin, A. Perry, P. Smith, J. Jiang, T. S. Xiao
Structure Of The Absent In Melanoma 2 (Aim2) Pyrin Domain Provides Insights Into The Mechanisms Of Aim2 Autoinhibitio And Inflammasome Assembly.
J. Biol. Chem. V. 288 13225 2013
PubMed-ID: 23530044  |  Reference-DOI: 10.1074/JBC.M113.468033

(-) Compounds

Molecule 1 - MALTOSE-BINDING PERIPLASMIC PROTEIN, INTERFERON-INDUCIBLE PROTEIN AIM2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: PYD DOMAIN (UNP RESIDUES 1-107)
    Gene: AIM2, ECS5017, MALE, MBP, Z5632
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: ESCHERICHIA COLI, HOMO SAPIENS
    Organism Taxid: 83334, 9606
    Synonym: MBP, MMBP, MALTODEXTRIN-BINDING PROTEIN, ABSENT IN MELANOMA 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 9)

Asymmetric/Biological Unit (3, 9)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
2K4Ligand/IonPOTASSIUM ION
3MTT1Ligand/IonMALTOTETRAOSE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:141 , MET A:1001 , HOH A:1545BINDING SITE FOR RESIDUE EDO A 1201
2AC2SOFTWARETYR A:90 , LYS A:305 , GLU A:309 , ILE A:1017 , ASP A:1019BINDING SITE FOR RESIDUE EDO A 1202
3AC3SOFTWAREMET A:321 , ASN A:1016 , THR A:1018 , GLU A:1021 , EDO A:1204 , HOH A:1384 , HOH A:1397BINDING SITE FOR RESIDUE EDO A 1203
4AC4SOFTWAREGLU A:308 , ALA A:312 , MET A:321 , THR A:1018 , GLU A:1021 , EDO A:1203 , HOH A:1469BINDING SITE FOR RESIDUE EDO A 1204
5AC5SOFTWAREASN A:12 , ASP A:14 , LYS A:15 , LYS A:42 , GLU A:44 , GLU A:45 , TRP A:62 , ALA A:63 , ASP A:65 , ARG A:66 , GLU A:111 , GLU A:153 , PRO A:154 , TYR A:155 , PHE A:156 , TRP A:230 , TRP A:340 , TYR A:341 , ARG A:344 , HOH A:1320 , HOH A:1337 , HOH A:1368 , HOH A:1466 , HOH A:1504BINDING SITE FOR RESIDUE MTT A 1205
6AC6SOFTWAREILE A:235 , ASP A:236 , SER A:238 , VAL A:240BINDING SITE FOR RESIDUE K A 1206
7AC7SOFTWARETHR A:128 , GLU A:130 , THR A:249 , PHE A:250 , LYS A:251 , GLY A:252 , HOH A:1542BINDING SITE FOR RESIDUE K A 1207
8AC8SOFTWARELEU A:147 , MET A:148 , HIS A:203 , MET A:204 , HOH A:1452BINDING SITE FOR RESIDUE K A 1208
9AC9SOFTWAREASP A:65 , ARG A:66 , GLY A:68 , GLY A:69 , ASN A:332 , ILE A:333 , HOH A:1510BINDING SITE FOR RESIDUE K A 1209

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3VD8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3VD8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3VD8)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SBP_BACTERIAL_1PS01037 Bacterial extracellular solute-binding proteins, family 1 signature.MALE_ECO57133-150  1A:107-124

(-) Exons   (0, 0)

(no "Exon" information available for 3VD8)

(-) 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:467
 aligned with MALE_ECO57 | P0AEY0 from UniProtKB/Swiss-Prot  Length:396

    Alignment length:467
                                                                                                                                                                                                                                                                                                                                                                                                                              396                                                                              
                                                                                                                                                                                                                                                                                                                                                                                                       392                 393  |                                                                              
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386     |   -         -     |  |-         -         -         -         -         -         -         -       
          MALE_ECO57     27 KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEALKDAQT-------------------RITK------------------------------------------------------------------------------    -
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeee.....hhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhh.......eeeee..hhhhhhhh........hhhhhh..hhhhhhhhee..ee..eeeeee..eeeee............hhhhhhhhhhh...eee.....hhhhhhhhhhhh..eeeeee..eeeeeeee..hhhhhhhhhhhhhhhhh.......hhhhhhhhhhh..eeeeeehhhhhhhhhhh...eeee............eeeeeeeee.....hhhhhhhhhhhh..hhhhhhhhhhhh...ee.hhhhhhhhh.hhhhhhhhhhhhh.ee.....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------SBP_BACTERIAL_1   ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3vd8 A    1 KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDIIFWAHDRFGGYAQSGLLAEITPAAAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYAAGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSAVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDAALAAAQTNAVDMESKYKEILLLTGLDNITDEELDRFKFFLSDEFNIATGKLHTANRIQVATLMIQNAGAVSAVMKTIRIFQKLNYMLLAKRLQEEKEKVDKQYKSVTK 1097
                                    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|     1010      1020      1030      1040      1050      1060      1070      1080      1090       
                                                                                                                                                                                                                                                                                                                                                                                                           370|                                                                                                
                                                                                                                                                                                                                                                                                                                                                                                                           1001
   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 3VD8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3VD8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3VD8)

(-) Gene Ontology  (32, 32)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MALE_ECO57 | P0AEY0)
molecular function
    GO:0005363    maltose transmembrane transporter activity    Enables the transfer of maltose from one side of the membrane to the other. Maltose is the disaccharide 4-O-alpha-D-glucopyranosyl-D-glucopyranose, an intermediate in the enzymatic breakdown of glycogen and starch.
    GO:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    GO:0008643    carbohydrate transport    The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are any of a group of organic compounds based of the general formula Cx(H2O)y.
    GO:0015768    maltose transport    The directed movement of maltose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Maltose is the disaccharide 4-O-alpha-D-glucopyranosyl-D-glucopyranose, an intermediate in the catabolism of glycogen and starch.
    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:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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 Related Entries

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

UniProtKB/Swiss-Prot
        AIM2_HUMAN | O14862: 3rn2 3rn5 4o7q
        MALE_ECO57 | P0AEY0: 1a7l 1anf 1dmb 1ez9 1ezo 1ezp 1fqa 1fqb 1fqc 1fqd 1hsj 1iud 1jvx 1jvy 1jw4 1jw5 1lax 1lls 1mdp 1mdq 1mg1 1mh3 1mh4 1mpb 1mpc 1mpd 1n3w 1n3x 1nl5 1nmu 1omp 1peb 1r6z 1svx 1t0k 1y4c 1ytv 1ziu 1zjl 1zkb 1zmg 2v93 3io4 3io6 3mbp 3osq 3osr 4feb 4mbp 4my2 4wgi 4wrn 4wth 4wvg 4wvh 4wvi 4wvj 4xa2 4xai 4xaj 4xhs 4ys9 5bmy 5c7r 5cl1 5dfm 5e24 5e7u 5edu 5fio 5ii4 5jj4 5jon 5jtq 5jtr 5k94 5ldf 5lof 5t03 5t05 5t0a 5ttd

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