3U80 - JenaLib

Title :   1.60 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF A 3-DEHYDROQUINATE DEHYDRATASE-LIKE PROTEIN FROM BIFIDOBACTERIUM LONGUM

Authors :   S. H. Light, G. Minasov, L. Shuvalova, L. Papazisi, A. Lavie, W. F. Ander Center For Structural Genomics Of Infectious Diseases (Csgi

Date :   14 Oct 11 (Deposition) - 26 Oct 11 (Release) - 08 May 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

Chains :   Asym./Biol. Unit : A,B

Keywords :   Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. H. Light, S. N. Krishna, R. C. Bergan, A. Lavie, W. F. Anderson
Crystal Structure Of A Type Ii Dehydroquinate Dehydratase-Like Protein From Bifidobacterium Longum.
J. Struct. Funct. Genom. V. 14 25 2013
PubMed-ID: 23539270 | Reference-DOI: 10.1007/S10969-013-9149-7

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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:127
 aligned with D6ZTY6_BIFLJ | D6ZTY6 from UniProtKB/TrEMBL  Length:148

    Alignment length:148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140        
         D6ZTY6_BIFLJ     1 MTKVIVVNGPNLGRLGVRQPDVYGRQDLDTLRKLCAEWGKDLGLEVEVRQTDDEAEMVRWMHQAADEKTPVVMNPAAFTHYSYALADAAHMVIDENLPLMEVHISNPSARDEFRKRSVISPVATGTITGMGFYGYKLALDAVAHLLSE 148
               SCOP domains d3u80a_ A: a            utomated matches                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee....------------.hhhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhh...eeeee....---------........eeee...hhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u80 A   1 MTKVIVVNGPNL------------RQDLDTLRKLCAEWGKDLGLEVEVRQTDDEAEMVRWMHQAADEKTPVVMNPAAFTHYSYALADAAHMVIDENLPLMEVHISNP---------SVISPVATGTITGMGFYGYKLALDAVAHLLSE 148
                                    10 |       -    |   30        40        50        60        70        80        90       100      |  -      |120       130       140        
                                      12           25                                                                               107       117

Chain B from PDB  Type:PROTEIN  Length:123
 aligned with D6ZTY6_BIFLJ | D6ZTY6 from UniProtKB/TrEMBL  Length:148

    Alignment length:148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140        
         D6ZTY6_BIFLJ     1 MTKVIVVNGPNLGRLGVRQPDVYGRQDLDTLRKLCAEWGKDLGLEVEVRQTDDEAEMVRWMHQAADEKTPVVMNPAAFTHYSYALADAAHMVIDENLPLMEVHISNPSARDEFRKRSVISPVATGTITGMGFYGYKLALDAVAHLLSE 148
               SCOP domains d3u80b_ B:               automated matches                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...--------------.hhhhhhhhhhhhhhhh.eeeeeee..hhhhhhhhhhhhhhhh..eeee.......hhhhhhhhhhhhhh...eeeee.......-----------...eeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3u80 B   1 MTKVIVVNGPN--------------QDLDTLRKLCAEWGKDLGLEVEVRQTDDEAEMVRWMHQAADEKTPVVMNPAAFTHYSYALADAAHMVIDENLPLMEVHISNPSAR-----------VATGTITGMGFYGYKLALDAVAHLLSE 148
                                    10|        -     |  30        40        50        60        70        80        90       100       110         - |     130       140        
                                     11             26                                                                                 110         122

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)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (D6ZTY6_BIFLJ | D6ZTY6)

molecular function
	GO:0003855	3-dehydroquinate dehydratase activity	Catalysis of the reaction: 3-dehydroquinate = 3-dehydroshikimate + H(2)O.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
biological process
	GO:0009073	aromatic amino acid family biosynthetic process	The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0009423	chorismate biosynthetic process	The chemical reactions and pathways resulting in the formation of the unsymmetrical ether derived from phosphoenolpyruvate and 5-phosphoshikimic acid formed as an intermediate in the biosynthesis of aromatic amino acids and many other compounds.

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Access by PDB/NDB ID
	3u80
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	D6ZTY6_BIFLJ \| D6ZTY6
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Description