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

H: Concanavalin A-like

T: Concanavalin A-like lectins/glucanases

F: VP4_haemagglut

F: Dit-like_CBM2

F: Polysacc_lyase

F: Alginate_lyase2

F: Lectin_leg-like

F: CoV_S1

Representatives:

e5szsA2[A:218-453] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e5szsB1[B:218-453] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e5szsC1[C:218-453] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e6b7nB3[B:52-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6b7nC3[C:52-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6bfuA4[A:52-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: BMA,NAG ; ELECTRON MICROSCOPY

e6bfuB2[B:52-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: BMA,NAG ; ELECTRON MICROSCOPY

e6bfuC2[C:52-286] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: BMA,NAG ; ELECTRON MICROSCOPY

e6u7hA4[A:60-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e6u7hB3[B:60-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e6u7hC2[C:60-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: BMA,MAN,NAG ; ELECTRON MICROSCOPY

e6jx7A2[A:282-390,A:411-514] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Feline Infectious Peritonitis Virus Spike Protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6jx7B2[B:282-390,B:411-514] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Feline Infectious Peritonitis Virus Spike Protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6jx7C2[C:282-390,C:411-514] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Feline Infectious Peritonitis Virus Spike Protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6vv5A1[A:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG,PAM ; ELECTRON MICROSCOPY

e6vv5B4[B:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG,PAM ; ELECTRON MICROSCOPY

e6vv5C3[C:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: BMA,MAN,NAG,PAM ; ELECTRON MICROSCOPY

e6ixaA4[A:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixaB1[B:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixaC1[C:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbA2[A:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbB2[B:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbC3[C:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e7kipA4[A:218-453] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7kipB5[B:218-453] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7kipC5[C:218-453] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7cycA1[A:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cycB2[B:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cycC3[C:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydA1[A:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydB3[B:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydC2[C:48-280] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7y6tB2[B:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7y6uA5[A:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7y6vA4[A:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7y6tA2[A:31-76,A:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7y6sA3[A:242-350,A:372-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7y6sB3[B:242-350,B:372-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7y6sC3[C:242-350,C:372-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ELECTRON MICROSCOPY

e7y6tC2[C:242-479] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6b7nA1[A:52-276] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

F: Sial-lect-inser

F: Glyco_hydro_59_C

F: Peptidase_A4

F: DUF1349

F: Neuralized

F: InhA-like_MAM

F: Glyco_hydro_11

F: Sialidase

F: SPRY,PRY

F: bCoV_S1_N

F: Lectin_legB

F: DUF1961

F: Sialidase-like_CBM

F: TS_C

F: Bact_lectin

F: SO2946-like_C

F: YrpD

F: PL28

F: Exotox-A_bind

F: Glyco_hydro_16,XET_C

F: Glyco_hydro_7

F: Cleaved_Adhesin

F: Pentaxin

F: Laminin_G_3

F: Calreticulin

F: MAM

F: Toxin_R_bind_N

F: DUF3472

F: Reoviridae_Vp9

F: GH43_C2

F: Laminin_G_1

F: SPRY

F: 3keto-disac_hyd

F: Glyco_hydro_16

F: Glyco_hydro_12

F: Glyco_hydro_32C

F: TgMIC1

F: HA1

F: Polysacc_lyase-like

F: TSP_C

F: Arabino_trans_N

F: ArabFuran-catal

F: Laminin_G_2

F: GH32_BT1760-like_C

F: GH131_N

F: Gal-bind_lectin

F: GH101_N

F: M2AP_beta_dom

F: G7C_C

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.

T: Galactose-binding domain-like

H: Nucleoplasmin-like/VP (viral coat and capsid proteins)

H: Polyhedrin

H: Jelly-roll domain in distal tail protein (Dit)-like proteins

H: TNF-like

H: Acetamidase/Formamidase-like

H: Spermadhesin, CUB domain

H: Latrophilin 1 gal_lectin domain

H: Viral protein domain

H: Calcium-mediated lectin

H: Hypothetical protein TM1070

H: Olfactory marker protein

H: C-terminal domain of mullusc hemocyanin

H: Domain I of tail sheath protein Gp18

H: Lipase/lipooxygenase domain (PLAT/LH2 domain)

H: ER-derived vesicles protein Erv41p lumenal domain

H: Thiamin pyrophosphokinase, substrate-binding domain

H: Double-stranded beta-helix

H: Calcium ATPase, transduction domain A

H: Trp RNA-binding attenuation protein (TRAP)

H: Smp-1-like

H: Jelly-roll domain in membrane penetration protein mu1

H: VPA0735-like

H: Jelly-roll domain in cysteine protease

H: Jelly-roll domain in ADAMTS13

H: DUF1989 family protein

H: Jelly-roll domain in outer capsid glycoprotein VP7

H: Jelly-roll domain in Adenovirus penton base protein

H: Jelly-roll domain in peptidase M60 family

H: Camelysin metallo-endopeptidase-like

H: Galactose-binding domain-like

H: Histone H3 binding protein ORF158L

H: Jelly-roll domain in Zinc finger protein ZPR1

H: MopE

H: Jelly-roll domain in minor capsid protein

H: Protein CLP1 jelly-roll domain

H: hypothetical protein lpg0956 N-terminal domain

H: TerD

H: DUF4425

H: Soluble domain of MmpS4

H: PHR domain

H: Protein Hikeshi jelly-roll domain

H: ssRNA positive-strand viruses coat protein P (projecting) domain

H: Major structural protein 1 jelly-roll domain

H: Carbohydrate-binding module 64 (CBM64)

H: PTX/LNS-Like (PLL) domain

H: Surface adhesin CshA non-repetitive domain 2

H: TssK C-terminal domain

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

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