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Protein

Endoglucanase D

Gene

celD

Organism
Clostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

This enzyme catalyzes the endohydrolysis of 1,4-beta-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.By similarity

Catalytic activityi

Endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.

Cofactori

Ca2+By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei201 – 2011NucleophilePROSITE-ProRule annotation
Active sitei516 – 5161By similarity
Active sitei546 – 5461By similarity
Active sitei555 – 5551Proton donorPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Glycosidase, Hydrolase

Keywords - Biological processi

Carbohydrate metabolism, Cellulose degradation, Polysaccharide degradation

Keywords - Ligandi

Calcium

Enzyme and pathway databases

BioCyciCTHE203119:GIW8-854-MONOMER.
MetaCyc:MONOMER-16416.

Protein family/group databases

CAZyiGH9. Glycoside Hydrolase Family 9.

Names & Taxonomyi

Protein namesi
Recommended name:
Endoglucanase D (EC:3.2.1.4)
Short name:
EGD
Alternative name(s):
Cellulase D
Endo-1,4-beta-glucanase
Gene namesi
Name:celD
Ordered Locus Names:Cthe_0825
OrganismiClostridium thermocellum (strain ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372) (Ruminiclostridium thermocellum)
Taxonomic identifieri203119 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesRuminococcaceaeRuminiclostridium
ProteomesiUP000002145 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 4141By similarityAdd
BLAST
Chaini42 – 649608Endoglucanase DPRO_0000284722Add
BLAST

Proteomic databases

PRIDEiA3DDN1.

Interactioni

Protein-protein interaction databases

STRINGi203119.Cthe_0825.

Structurei

Secondary structure

1
649
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi594 – 60411Combined sources
Helixi614 – 6207Combined sources
Helixi630 – 64011Combined sources
Beta strandi643 – 6453Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4FL4X-ray2.90A/D/G/J584-649[»]
ProteinModelPortaliA3DDN1.
SMRiA3DDN1. Positions 35-575, 580-649.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiA3DDN1.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati585 – 608241Add
BLAST
Repeati621 – 644242Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni585 – 644602 X 24 AA approximate repeatsAdd
BLAST

Domaini

A 24 residue domain is repeated twice in this enzyme as well as in other C.thermocellum cellulosome enzymes. This domain may function as the binding ligand for the SL component (By similarity).By similarity

Sequence similaritiesi

Keywords - Domaini

Repeat, Signal

Phylogenomic databases

eggNOGiNOG05134.
HOGENOMiHOG000245359.
KOiK01179.
OMAiCSYASNE.
OrthoDBiEOG6BCSN2.

Family and domain databases

Gene3Di1.10.1330.10. 1 hit.
1.50.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR008928. 6-hairpin_glycosidase-like.
IPR012341. 6hp_glycosidase.
IPR016134. Cellulos_enz_dockerin_1.
IPR002105. Cellulos_enz_dockerin_1_Ca-bd.
IPR018242. Dockerin_1.
IPR001701. Glyco_hydro_9.
IPR018221. Glyco_hydro_9_AS.
IPR004197. Glyco_hydro_9_Ig-like.
IPR013783. Ig-like_fold.
IPR014756. Ig_E-set.
[Graphical view]
PfamiPF02927. CelD_N. 1 hit.
PF00404. Dockerin_1. 2 hits.
PF00759. Glyco_hydro_9. 1 hit.
[Graphical view]
SUPFAMiSSF48208. SSF48208. 1 hit.
SSF63446. SSF63446. 1 hit.
SSF81296. SSF81296. 1 hit.
PROSITEiPS00448. CLOS_CELLULOSOME_RPT. 2 hits.
PS00018. EF_HAND_1. 2 hits.
PS00592. GLYCOSYL_HYDROL_F9_1. 1 hit.
PS00698. GLYCOSYL_HYDROL_F9_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

A3DDN1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRMTLKSSM KKRVLSLLIA VVFLSLTGVF PSGLIETKVS AAKITENYQF
60 70 80 90 100
DSRIRLNSIG FIPNHSKKAT IAANCSTFYV VKEDGTIVYT GTATSMFDND
110 120 130 140 150
TKETVYIADF SSVNEEGTYY LAVPGVGKSV NFKIAMNVYE DAFKTAMLGM
160 170 180 190 200
YLLRCGTSVS ATYNGIHYSH GPCHTNDAYL DYINGQHTKK DSTKGWHDAG
210 220 230 240 250
DYNKYVVNAG ITVGSMFLAW EHFKDQLEPV ALEIPEKNNS IPDFLDELKY
260 270 280 290 300
EIDWILTMQY PDGSGRVAHK VSTRNFGGFI MPENEHDERF FVPWSSAATA
310 320 330 340 350
DFVAMTAMAA RIFRPYDPQY AEKCINAAKV SYEFLKNNPA NVFANQSGFS
360 370 380 390 400
TGEYATVSDA DDRLWAAAEM WETLGDEEYL RDFENRAAQF SKKIEADFDW
410 420 430 440 450
DNVANLGMFT YLLSERPGKN PALVQSIKDS LLSTADSIVR TSQNHGYGRT
460 470 480 490 500
LGTTYYWGCN GTVVRQTMIL QVANKISPNN DYVNAALDAI SHVFGRNYYN
510 520 530 540 550
RSYVTGLGIN PPMNPHDRRS GADGIWEPWP GYLVGGGWPG PKDWVDIQDS
560 570 580 590 600
YQTNEIAINW NAALIYALAG FVNYNSAQNE VLYGDVNDDG KVNSTDLTLL
610 620 630 640
KRYVLKAVST LPSSKAEKNA DVNRDGRVNS SDVTILSRYL IRVIEKLPI
Length:649
Mass (Da):72,415
Last modified:March 20, 2007 - v1
Checksum:i3A6A44735B29D3F4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti577 – 5771A → P in CAA28255 (PubMed:3024110).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04584 Genomic DNA. Translation: CAA28255.1.
CP000568 Genomic DNA. Translation: ABN52060.1.
PIRiA25535. CZCLDM.
RefSeqiWP_011837914.1. NC_009012.1.

Genome annotation databases

EnsemblBacteriaiABN52060; ABN52060; Cthe_0825.
KEGGicth:Cthe_0825.
PATRICi19515357. VBICloThe47081_0867.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04584 Genomic DNA. Translation: CAA28255.1.
CP000568 Genomic DNA. Translation: ABN52060.1.
PIRiA25535. CZCLDM.
RefSeqiWP_011837914.1. NC_009012.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4FL4X-ray2.90A/D/G/J584-649[»]
ProteinModelPortaliA3DDN1.
SMRiA3DDN1. Positions 35-575, 580-649.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi203119.Cthe_0825.

Protein family/group databases

CAZyiGH9. Glycoside Hydrolase Family 9.

Proteomic databases

PRIDEiA3DDN1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABN52060; ABN52060; Cthe_0825.
KEGGicth:Cthe_0825.
PATRICi19515357. VBICloThe47081_0867.

Phylogenomic databases

eggNOGiNOG05134.
HOGENOMiHOG000245359.
KOiK01179.
OMAiCSYASNE.
OrthoDBiEOG6BCSN2.

Enzyme and pathway databases

BioCyciCTHE203119:GIW8-854-MONOMER.
MetaCyc:MONOMER-16416.

Miscellaneous databases

EvolutionaryTraceiA3DDN1.

Family and domain databases

Gene3Di1.10.1330.10. 1 hit.
1.50.10.10. 1 hit.
2.60.40.10. 1 hit.
InterProiIPR008928. 6-hairpin_glycosidase-like.
IPR012341. 6hp_glycosidase.
IPR016134. Cellulos_enz_dockerin_1.
IPR002105. Cellulos_enz_dockerin_1_Ca-bd.
IPR018242. Dockerin_1.
IPR001701. Glyco_hydro_9.
IPR018221. Glyco_hydro_9_AS.
IPR004197. Glyco_hydro_9_Ig-like.
IPR013783. Ig-like_fold.
IPR014756. Ig_E-set.
[Graphical view]
PfamiPF02927. CelD_N. 1 hit.
PF00404. Dockerin_1. 2 hits.
PF00759. Glyco_hydro_9. 1 hit.
[Graphical view]
SUPFAMiSSF48208. SSF48208. 1 hit.
SSF63446. SSF63446. 1 hit.
SSF81296. SSF81296. 1 hit.
PROSITEiPS00448. CLOS_CELLULOSOME_RPT. 2 hits.
PS00018. EF_HAND_1. 2 hits.
PS00592. GLYCOSYL_HYDROL_F9_1. 1 hit.
PS00698. GLYCOSYL_HYDROL_F9_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequence of the cellulase gene celD encoding endoglucanase D of Clostridium thermocellum."
    Joliff G., Beguin P., Aubert J.-P.
    Nucleic Acids Res. 14:8605-8613(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27405 / DSM 1237 / NBRC 103400 / NCIMB 10682 / NRRL B-4536 / VPI 7372.

Entry informationi

Entry nameiGUND_CLOTH
AccessioniPrimary (citable) accession number: A3DDN1
Secondary accession number(s): P04954
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 17, 2007
Last sequence update: March 20, 2007
Last modified: July 22, 2015
This is version 58 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Glycosyl hydrolases
    Classification of glycosyl hydrolase families and list of entries
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.