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(-) Description

Title :  CRYSTAL STRUCTURE OF A YBJQ-LIKE FOLD PROTEIN OF UNKNOWN FUNCTION (BH3498) FROM BACILLUS HALODURANS AT 1.46 A RESOLUTION
 
Authors :  Joint Center For Structural Genomics (Jcsg)
Date :  23 Sep 04  (Deposition) - 05 Oct 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.46
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Hypothetical Protein (10176122) From Bacillus Halodurans At 1. 46 A Resolution
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: BACILLUS HALODURANS
    Organism Taxid: 86665

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (4, 7)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2EDO3Ligand/Ion1,2-ETHANEDIOL
3EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
4NA1Ligand/IonSODIUM ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:90 , HOH A:137 , THR B:90 , HOH B:140 , THR C:90 , HOH C:138BINDING SITE FOR RESIDUE NA A 134
2AC2SOFTWAREHOH A:269 , HIS B:41 , THR B:42 , THR B:43 , ARG B:124 , HOH B:138BINDING SITE FOR RESIDUE ACT B 134
3AC3SOFTWAREHIS A:41 , THR A:42 , THR A:43 , ARG A:124 , HOH A:154 , TRP C:109BINDING SITE FOR RESIDUE ACT A 135
4AC4SOFTWARETHR B:108 , TRP B:109 , ILE C:61 , MET C:62 , HOH C:162 , HOH C:169BINDING SITE FOR RESIDUE EDO C 134
5AC5SOFTWAREASN A:74 , GLU B:50 , TRP B:109 , HOH B:254 , HIS C:41 , THR C:42 , THR C:43 , HIS C:77 , GLU C:79 , ARG C:124 , HOH C:150 , HOH C:229 , HOH C:235BINDING SITE FOR RESIDUE EPE C 135
6AC6SOFTWAREGLY B:107 , THR B:108 , LEU C:40 , HIS C:41 , HOH C:193 , HOH C:231BINDING SITE FOR RESIDUE EDO B 135
7AC7SOFTWAREGLU B:101 , ARG B:103 , HOH B:225 , PRO C:120 , ARG C:121BINDING SITE FOR RESIDUE EDO C 136

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1VMF)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Gly A:119 -Pro A:120
2Gly B:119 -Pro B:120
3Gly C:119 -Pro C:120

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1VMF)

(-) Exons   (0, 0)

(no "Exon" information available for 1VMF)

(-) 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:136
 aligned with Q9K772_BACHD | Q9K772 from UniProtKB/TrEMBL  Length:133

    Alignment length:136
                               1                                                                                                                                    
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127      
         Q9K772_BACHD     - ---MKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
               SCOP domains d1vmfa_ A: Hypothetical protein BH3498                                                                                                   SCOP domains
               CATH domains 1vmfA00 A:-2-133 Hypothetical protein                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......eeeehhhhhhhhhhhhh...eeeeeee....eeeeeee..hhhhhhhhhhhhhhhh............hhhhhhhhhhhh.eeeeeee..ee.....eeeeeee.......eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vmf A  -2 HHHMKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
                                     7        17        27        37        47        57        67        77        87        97       107       117       127      


Chain B from PDB  Type:PROTEIN  Length:136
 aligned with Q9K772_BACHD | Q9K772 from UniProtKB/TrEMBL  Length:133

    Alignment length:136
                               1                                                                                                                                    
                               |     7        17        27        37        47        57        67        77        87        97       107       117       127      
         Q9K772_BACHD     - ---MKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
               SCOP domains d1vmfb_ B: Hypothetical protein BH3498                                                                                                   SCOP domains
               CATH domains 1vmfB00 B:-2-133 Hypothetical protein                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee......eeeehhhhhhhhhhhhh...eeeeeee....eeeeeee..hhhhhhhhhhhhhhhh............hhhhhhhhhhhh.eeeeeee..ee.....eeeeeee.......eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vmf B  -2 HHHMKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
                                     7        17        27        37        47        57        67        77        87        97       107       117       127      


Chain C from PDB  Type:PROTEIN  Length:135
 aligned with Q9K772_BACHD | Q9K772 from UniProtKB/TrEMBL  Length:133

    Alignment length:135
                              1                                                                                                                                    
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128     
         Q9K772_BACHD     - --MKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
               SCOP domains d1vmfc_ C: Hypothetical protein BH3498                                                                                                  SCOP domains
               CATH domains 1vmfC00 C:-1-133 Hypothetical protein                                                                                                   CATH domains
           Pfam domains (1) ----------------UPF0047-1vmfC01 C:15-131                                                                                             -- Pfam domains (1)
           Pfam domains (2) ----------------UPF0047-1vmfC02 C:15-131                                                                                             -- Pfam domains (2)
           Pfam domains (3) ----------------UPF0047-1vmfC03 C:15-131                                                                                             -- Pfam domains (3)
         Sec.struct. author ..eeeeee......eeeehhhhhhhhhhhhh...eeeeeee....eeeeeee..hhhhhhhhhhhhhhhh............hhhhhhhhhhhh.eeeeeee..ee.....eeeeeee.......eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vmf C  -1 HHMKTFHLTTQSRDEMVDITSQIETWIRETGVTNGVAIVSSLHTTAGITVNENADPDVKRDMIMRLDEVYPWHHENDRHMEGNTAAHLKTSTVGHAQTLIISEGRLVLGTWQGVYFCEFDGPRTNRKFVVKLLTD 133
                                     8        18        28        38        48        58        68        78        88        98       108       118       128
   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, 3)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (1, 3)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 1VMF)

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  Cis Peptide Bonds
    Gly A:119 - Pro A:120   [ RasMol ]  
    Gly B:119 - Pro B:120   [ RasMol ]  
    Gly C:119 - Pro C:120   [ RasMol ]  
 

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