Evolutionary classification of protein domain structures

alpha arraysalpha-helix arrays with mainly perpendicular helices

alpha bundlesalpha-helix bundles with mainly parallel helices

alpha superhelicesrepeating alpha-helix hairpins form a superhelix

alpha duplicates or obligate multimersalpha duplicates or monomers associate together to form a compact domain

alpha complex topologyalpha domain with complex and unique topology that cannot be described as array or bundle or superhelix

beta barrelssingle beta-sheet folded upon itself to form a barrel

beta meanderssingle beta-sheet with mainly meander topology

beta sandwichestwo beta-sheets stacked together to form a sandwich

X: ISP domain

X: avirulence protein AvrPiz-t homologs

X: N-utilization substance G protein NusG, insert domain

X: Fas apoptotic inhibitory molecule

X: N-terminal domain in envelope glycoprotein E2

X: C-terminal region of envelope glycoprotein E2

X: beta sandwich domain in acetophenone carboxylase (Apc) alpha subunit

X: Composite domain of metallo-dependent hydrolases

X: EscU C-terminal domain-like

X: HSP20-like

X: alpha-Amylase inhibitor tendamistat

X: BTV NS2-like ssRNA-binding domain (N-terminal half of Pfam 04514)

X: Neurophysin II

X: Agglutinin HPA-like

X: jelly-roll

X: putative carbohydrate-binding module of GH2

X: Flagellar hook-associated protein 1 beta-sandwich domains

X: gp11/flagellar cap protein FliD insertion domain

X: Apc (acetophenone carboxylase) beta subunit C-terminal domain

X: beta-sandwich domain in YqeH GTPase

X: Putative transcription regulator R01717-related

X: Amiloride-sensitive cation channel 2

X: Major vault protein (MVP) structural repeat domain

X: Head-binding domain of phage P22 tailspike protein

X: Putative tailspike protein Orf210 N-terminal domain

X: Tail sheath protein beta-sandwich domain

X: 26S proteasome subunit Rpn2 C-terminal domain

X: beta sandwich domain in YacF-like proteins

X: Ecotin, trypsin inhibitor

X: Soluble secreted chemokine inhibitor, VCCI

X: hypothetical protein BT_3535

X: N-terminal domain of BT_2081-like

X: C protein alpha-antigen beta-sandwich domain

X: Baseplate structural protein gp6 C-terminal domain II

X: Immunoglobulin-like beta-sandwich

X: Mucin-like region of HAP2

X: N-terminal half of TgpA periplasmic domain

X: Starch specific carbohydrate-binding modules

X: Insertion domain in tetravirus coat protein

X: hypothetical protein BA_2335

X: Lactococcin 972

X: Arginine methyltransferase oligomerization subdomain

X: Cupredoxin-like

X: WSSV envelope protein-like

X: Baculovirus p35 protein-related

X: Ig-like domain in anthrax protective antigen

X: N-terminal beta-sandwich domain in anthrax protective antigen

X: Middle beta-sandwich domain in anthrax protective antigen

X: N-terminal domain in a putative lipoprotein BACOVA_00967

X: C-terminal domain in a putative lipoprotein BACOVA_00967

X: Cellulose-binding protein CttA N-terminal domain

X: Ig-like domain in putative lipoprotein BF3042-related proteins

X: Domain in virus attachment proteins

X: VP4 membrane interaction domain

X: Mucin-binding protein domain

X: C-terminal domain of envelope glycoprotein H

X: Glycosyl hydrolase domain-like

some similarity with Ig fold

H: Glycosyl hydrolase domain

H: Hyaluronate lyase-like, C-terminal domain

T: Hyaluronate lyase-like, C-terminal domain

F: Alg17C_C

F: Glyco_hydro_98C

F: Baculo_E66

F: Vanin_C

F: Lyase_8_C

Representatives:

e1rwhA1[A:645-757] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

chondroitin AC lyase ; ligands: GOL ; X-RAY DIFFRACTION 1.25Å

e1n7oA1[A:815-890] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

hyaluronidase ; X-RAY DIFFRACTION 1.50Å

e1cb8A1[A:600-700] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (CHONDROITINASE AC) ; X-RAY DIFFRACTION 1.8Å

e2q1fA4[A:864-939,A:964-1014] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chondroitinase ; ligands: PO4 ; X-RAY DIFFRACTION 2.850Å

e2q1fB8[B:867-938,B:963-1014] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chondroitinase ; X-RAY DIFFRACTION 2.850Å

e1hmuA1[A:600-699] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHONDROITINASE AC ; X-RAY DIFFRACTION 2.0Å

e1hmwA1[A:600-699] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHONDROITINASE AC ; X-RAY DIFFRACTION 2.3Å

e1hm2A1[A:600-699] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHONDROITINASE AC ; X-RAY DIFFRACTION 2.0Å

e1hm3A1[A:600-699] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHONDROITINASE AC ; X-RAY DIFFRACTION 2.1Å

e1n7pA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONIDASE ; X-RAY DIFFRACTION 1.55Å

e2brwA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 2.8Å

e2brpA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; ligands: XLS ; X-RAY DIFFRACTION 2.000Å

e1n7qA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONIDASE ; X-RAY DIFFRACTION 2.30Å

e1ojoA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.75Å

e1w3yA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; ligands: XYL ; X-RAY DIFFRACTION 1.65Å

e1ojnA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.6Å

e1lohA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Hyaluronate Lyase ; X-RAY DIFFRACTION 2.0Å

e1f9gA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 2.0Å

e1n7nA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONIDASE ; X-RAY DIFFRACTION 1.55Å

e1c82A1[A:815-889] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.7Å

e1ojpA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.9Å

e1ojmA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.78Å

e1eguA1[A:815-892] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 1.56Å

e1n7rA1[A:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONIDASE ; X-RAY DIFFRACTION 2.20Å

e2brwB1[B:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 2.8Å

e1lxkA1[A:815-889] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Hyaluronate Lyase ; X-RAY DIFFRACTION 1.53Å

e2brvX1[X:815-890] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; ligands: MLA ; X-RAY DIFFRACTION 3.300Å

e1lxmA2[A:912-984] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE Lyase ; X-RAY DIFFRACTION 2.20Å

e1i8qA2[A:912-984] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 2.2Å

e1j0mA1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

XANTHAN LYASE ; ligands: CA ; X-RAY DIFFRACTION 2.22Å

e1j0nA1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

XANTHAN LYASE ; ligands: CA ; X-RAY DIFFRACTION 2.40Å

e1x1hA1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

xanthan lyase ; X-RAY DIFFRACTION 2.3Å

e1x1jA1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

xanthan lyase ; ligands: CA ; X-RAY DIFFRACTION 2.1Å

e2e22A1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

XANTHAN LYASE ; X-RAY DIFFRACTION 2.4Å

e2e24A1[A:660-777] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Xanthan lyase ; X-RAY DIFFRACTION 2.15Å

e6f2pA3[A:635-761] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Paenibacillus xanthan lyase ; ligands: CA,MPD,MRD ; X-RAY DIFFRACTION 2.6Å

e2wcoA3[A:652-765] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PUTATIVE SECRETED LYASE ; X-RAY DIFFRACTION 1.94Å

e1x1iA1[A:660-777] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

xanthan lyase ; X-RAY DIFFRACTION 1.8Å

e1hn0A2[A:900-1021] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHONDROITIN ABC LYASE I ; X-RAY DIFFRACTION 1.9Å

e1f1sA2[A:912-984] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYALURONATE LYASE ; X-RAY DIFFRACTION 2.1Å

F: Unmapped domains

Pseudo group of domains that do not map to PFam family profiles. Domains inside should not be considered as in one family.

H: supersandwich

H: V-region of surface antigen I/II (SA I/II, PAC)

H: ZU5/Nup98-C/GAIN-B autoproteolytic domain-related

H: Glycoside hydrolase family 127 middle domain-related

H: Glycosyl hydrolases family 2 small beta-sandwich domain

X: Putative glucosidase YicI, C-terminal domain

X: Putative anti-sigma factor BDI_1681 N-terminal domain

X: Immunomodulator A46 N-terminal domain

X: TraO N-terminal domain

X: Beta-galactosidase LacA, domain 3

X: Lactophage receptor-binding protein N-terminal domain-like

X: gamma-Crystallin-like

X: C-terminal domain of viral protein A26

X: Ice-binding adhesin

X: Third domain in metalloprotease StcE

X: Herpesvirus nuclear egress complex subunit M50 N-terminal domain

X: SMAD/FHA domain

X: Heme-binding protein HmuY-related

X: NAD kinase beta sandwich domain-like

X: Epsilon subunit of F1F0-ATP synthase-N

X: CPE0013-like

X: Penicillin-binding protein associated domain

X: E2 regulatory, transactivation domain

X: Flagellar hook protein flgE D2 domain-like

X: Flagellar hook subunit protein FlgE beta sandwich domain

X: HSP40/DnaJ peptide-binding domain

X: DNA-entry nuclease inhibitor

X: Heat shock protein 70kD (HSP70), peptide-binding domain

X: gp9 N-terminal domain-like

X: gp9 C-terminal domain-like

X: Hypothetical Protein lmo2686

X: ENV polyprotein, receptor-binding domain

X: C-terminal domain in YerB-like proteins

X: Nascent polypeptide-associated complex (NAC) dimerization domain

X: A putative surface protein

X: P2X purinoceptor

X: Atg29-Atg31

X: Surface cell antigen (sca) N-terminal domain

X: Uncharacterized protein BAS0735

X: SARAF luminal domain

X: Piezo CTL2 domain

beta duplicates or obligate multimersbeta duplicates or monomers associate together to form a compact domain

beta complex topologybeta domains with complex and unique topology that cannot be described as barrel or sandwich or meander

a+b two layersone alpha-helix layer and one beta-sheet layer

a+b three layersone mainly antiparallel beta-sheet layer sandwiched between two alpha-helix layers

a+b four layerstwo beta-sheet layers sandwiched between two alpha-helix layers

a+b complex topologyalpha and beta domain with complex and unique topology that cannot be described in layers

a+b duplicates or obligate multimersalpha and beta duplicates or monomers associated together to form a compact domain

a/b barrelsrepeating beta-alpha units form a barrel

a/b three-layered sandwichesrepeating beta-alpha units form a sandwich with a mainly parallel beta-sheet layer stacked between two alpha-helix layers

mixed a+b and a/balpha and beta domain consists of both a+b and a/b regions

few secondary structure elementsstabilized by cofactors or disulfides

extended segmentsextended, non-globular segments, frequently bind to other proteins to form complexes

special