Top Level Name

  ⌊ Superfamily (core) Enolase

    ⌊ Subgroup mandelate racemase

     ⌊ Family galactarolactone cycloisomerase

  ⌊ FunctionalDomain galactarolactone cycloisomerase (ID 1742846)

Superfamily Assignment Evidence Code(s) ISS
Family Assignment Evidence Code IGS
This entry was last updated onNov. 22, 2017

References to Other Databases

Genbank

SpeciesGIAccessionProteome
Rhizobium sp. IRBG74 Taxon ID: 424182 549799223 WP_022562652.1 (RefSeq) URP
Rhizobium sp. IRBG74 Taxon ID: 424182 549127461 URP

Uniprot

Protein NameAccessionEC Number Identifier
n/a U4PY39 U4PY39_9RHIZ (TrEMBL)

Sequence

Length of Enzyme (full-length): 378 | Length of Functional Domain: 378

1       10        20        30        40        50        60

MKITAVRTHLLEHRLDTPFESASMRFDRRAHVLVEIECDDGTVGWGECLGPARPNAAVVQ
AYSGWLIGQDPRQTEKIWAVLYNALRDQGQRGLSLTALSGIDIALWDIKGKHYGASISML
LGGRWRESVRAYATGSFKRHGVDRVSDNASEMAERRADGFHACKIKIGFGIEEDLRVIAA
VREAIGPDMRLMIDANHGYTVTEAVTLGNRAADYGIDWFEEPVVPEQLDAYQRVRAGQPI
PVAGGETWHGRHGMWQALSAGAVDILQPDLCGCGGFSETQKIATLATLHGVRIVPHVWGT
GVQIAAALQFMAAMTPDPVRVNPIEPIMEFDRTHNPFRQAVLSEPLEAVDGIVAIPDGPG
LGIEINRDALVEFRMPDP
This shows the full-length sequence of the enzyme. The region of the functional domain is highlighted in black letters, while the residual residues are shown in grey. The Superfamily domain, when present, is shown using underlining. In many cases the functional domain is the full-length sequence.
Conserved catalytic residues (as determined by automated alignment to family, subgroup, or superfamily HMMs) are shown with teal highlighting . Conserved catalytic residues which do not matched the Conserved Alignment Residue are shown with maroon highlighting . Information regarding their function can be found in the Conserved Residues section below.
FASTA formatted full-length sequence.
BLAST this sequence against SFLD.
Scan SFLD-HMMs with this sequence.

Conserved Residues
Superfamily CAR This EFD conserves 3/3 Superfamily-specific Conserved Alignment Residues.
Position Amino Acid Location Function Role Evidence Code Reference
194 Asp (D) side chain metal binding ligand metal ligand -- binding ISS PubMed:8987982
220 Glu (E) side chain metal binding ligand metal ligand -- binding ISS PubMed:8987982
246 Glu (E) side chain metal binding ligand metal ligand -- binding ISS PubMed:8987982
Subgroup CAR This EFD conserves 5/5 Subgroup-specific Conserved Alignment Residues.
Position Amino Acid Location Function Role Evidence Code Reference
194 Asp (D) side chain metal binding ligand metal ligand -- binding ICS
220 Glu (E) side chain metal binding ligand metal ligand -- binding ICS
246 Glu (E) side chain metal binding ligand metal ligand -- binding ICS
269 Asp (D) side chain controls pKa of catalytic His perturbates pKa -- spectator IDA
296 His (H) side chain proton abstraction (general base) proton relay -- reactant IDA
Family CAR This EFD conserves 7/7 Family-specific Conserved Alignment Residues.
Position Amino Acid Location Function Role Evidence Code Reference
166 Lys (K) side chain Acid/base catalyst proton relay -- reactant ISS PubMed:22493433
194 Asp (D) side chain Metal binding ligand metal ligand -- binding ICS PubMed:26750482
220 Glu (E) side chain Metal binding ligand metal ligand -- binding ICS PubMed:26750482
246 Glu (E) side chain Metal binding ligand metal ligand -- binding ICS PubMed:26750482
269 Asp (D) side chain Controls pKa of catalytic His activation -- spectator ISS PubMed:22493433
296 His (H) side chain General acid--donates proton to beta carbon of substrate as ring opens proton relay -- reactant ISS PubMed:26750482
329 Glu (E) side chain General Acid proton relay -- reactant ISS PubMed:22493433

Structures

PDB ID Title Molecule Name Number of
EFDs		 Resolution (Å) Mutant? Het group Links
4HPN Crystal Structure Of A Proposed Galactarolactone Cycloisomerase From Agrobacterium Tumefaciens, Target Efi-500704, With Bound Ca, Ordered Loops Putative Uncharacterized Protein 12 1.6 Calcium Ion
(2 more ⇓) 		CSA • PDB • PDBSum
4GGB Crystal Structure Of A Proposed Galactarolactone Cycloisomerase From Agrobacterium Tumefaciens, Target Efi-500704, With Bound Ca, Disordered Loops Putative Uncharacterized Protein 12 2.0 Calcium Ion • Chloride Ion CSA • PDB • PDBSum
Percent identity and alignment length from the BLAST match of the Functional Domain sequence to the PDB sequence.
"Yes" indicates that a GI associated with this Functional Domain was mapped to the PDB ID via UniProtKB.

Curation History
Time Change Annotation Old Value New Value
Aug. 1, 2014, 3:14 a.m. update curation agent updateSuperfamily.py setDomainBoundaries.py
July 9, 2015, 3:38 a.m. update curation agent setDomainBoundaries.py sbrown
update curation agent sbrown setDomainBoundaries.py
update name uncharacterized mandelate racemase subgroup sequence galactarolactone cycloisomerase
update superfamily assignment evidence code IEA ISS
Sept. 14, 2015, 3:43 a.m. update domain end position 377 378
EC number assigned by UniProtKB accession ID.