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(-) Description

Title :  CRYSTAL STRUCTURE OF HYPOTHETICAL PROTEIN APE1520 FROM AEROPYRUM PERNIX K1
 
Authors :  H. Yamamoto, N. Kunishima, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  18 Mar 07  (Deposition) - 18 Sep 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.95
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (3x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  B  (3x)
Keywords :  Structural Genomics, Unknown Function, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Yamamoto, N. Kunishima
Crystal Structure Of Hypothetical Protein Ape1520 From Aeropyrum Pernix K1
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21-CODONPLUS(DE3)-RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 4-136
    Organism Scientific: AEROPYRUM PERNIX
    Organism Taxid: 56636

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (3x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 1 (1, 9)
No.NameCountTypeFull Name
1SO49Ligand/IonSULFATE ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 3 (1, 9)
No.NameCountTypeFull Name
1SO49Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:43 , THR A:44 , THR A:45 , ARG A:125 , HOH A:507 , HOH A:525 , HOH A:568 , ARG B:105BINDING SITE FOR RESIDUE SO4 A 501
2AC2SOFTWAREARG A:12 , ARG A:13 , LEU A:14 , ARG A:66BINDING SITE FOR RESIDUE SO4 A 502
3AC3SOFTWAREARG B:12 , ARG B:13 , LEU B:14 , ARG B:66 , HOH B:579BINDING SITE FOR RESIDUE SO4 B 503
4AC4SOFTWAREARG A:105 , HIS B:43 , THR B:44 , THR B:45 , TRP B:111 , ARG B:125 , HOH B:506 , HOH B:533 , HOH B:598BINDING SITE FOR RESIDUE SO4 B 504
5AC5SOFTWARETHR B:7 , VAL B:8 , LYS B:9 , LYS B:22 , HOH B:597BINDING SITE FOR RESIDUE SO4 B 505
6AC6SOFTWAREVAL A:8 , LYS A:9 , LYS A:22 , HOH A:544BINDING SITE FOR RESIDUE SO4 A 506

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2P6H)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Gly A:121 -Pro A:122
2Gly B:121 -Pro B:122

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2P6H)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2P6H)

(-) Exons   (0, 0)

(no "Exon" information available for 2P6H)

(-) Sequences/Alignments

Asymmetric 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:134
 aligned with Q9YBS9_AERPE | Q9YBS9 from UniProtKB/TrEMBL  Length:136

    Alignment length:134
                                    12        22        32        42        52        62        72        82        92       102       112       122       132    
         Q9YBS9_AERPE     3 VETGSFTVKTERRLQVLDVTGKVEEWLSTVGGVNGLLVVYVPHTTAAVAVNEAEPRLMEDIVEFIRELTKPGGPWKHNLVDVNAHAHLGNTIIGDSRVIPVVGGRLSLGTWQRILFVEMDGPRERTVNLLYLGE 136
               SCOP domains d2p6ha_ A: automated matches                                                                                                           SCOP domains
               CATH domains 2p6hA00 A:1-134 Hypothetical protein                                                                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....eeeehhhhhhhhhhh....eeeeeee.....eeeeee..hhhhhhhhhhhhhhhhh....hhhhhh..hhhhhhhhhhhh.eeeeeee..ee......eeeeee.....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p6h A   1 METGSFTVKTERRLQVLDVTGKVEEWLSTVGGVNGLLVVYVPHTTAAVAVNEAEPRLMEDIVEFIRELTKPGGPWKHNLVDVNAHAHLGNTIIGDSRVIPVVGGRLSLGTWQRILFVEMDGPRERTVNLLYLGE 134
                                    10        20        30        40        50        60        70        80        90       100       110       120       130    


Chain B from PDB  Type:PROTEIN  Length:134
 aligned with Q9YBS9_AERPE | Q9YBS9 from UniProtKB/TrEMBL  Length:136

    Alignment length:134
                                    12        22        32        42        52        62        72        82        92       102       112       122       132    
         Q9YBS9_AERPE     3 VETGSFTVKTERRLQVLDVTGKVEEWLSTVGGVNGLLVVYVPHTTAAVAVNEAEPRLMEDIVEFIRELTKPGGPWKHNLVDVNAHAHLGNTIIGDSRVIPVVGGRLSLGTWQRILFVEMDGPRERTVNLLYLGE 136
               SCOP domains d2p6hb_ B: automated matches                                                                                                           SCOP domains
               CATH domains 2p6hB00 B:1-134 Hypothetical protein                                                                                                   CATH domains
           Pfam domains (1) ----------------UPF0047-2p6hB01 B:17-132                                                                                            -- Pfam domains (1)
           Pfam domains (2) ----------------UPF0047-2p6hB02 B:17-132                                                                                            -- Pfam domains (2)
         Sec.struct. author .eeeeeeee.....eeeehhhhhhhhhhhhh..eeeeeee.....eeeeee..hhhhhhhhhhhhhhhhh....hhhhhh..hhhhhhhhhhhh.eeeeeee..ee......eeeeee.....eeeeeeeeeee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p6h B   1 METGSFTVKTERRLQVLDVTGKVEEWLSTVGGVNGLLVVYVPHTTAAVAVNEAEPRLMEDIVEFIRELTKPGGPWKHNLVDVNAHAHLGNTIIGDSRVIPVVGGRLSLGTWQRILFVEMDGPRERTVNLLYLGE 134
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   Legend:   → Mismatch (orange background)
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  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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: UPF0047] (8)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2P6H)

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