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

X: cradle loop barrel

Refs: Structure 14, 1489-1498; Current opinion in structural biology 18, 358-365

X: N-terminal domain of TAP-binding protein-related

X: P22 coat protein insertion domain

X: Catalytic domain of hepatitis C virus NS2-3 protease

X: N-terminal domain of minor coat protein pIII

X: uncharacterized protein RUMGNA_01417

X: Ribosomal protein L21p

X: Ribosomal protein L25-like

X: Uncharacterized protein from gene locus rrnAC0354

X: Replication foci-targeting sequence N-terminal domain

X: Protein CLP1 C-terminal domain

X: Glycoside hydrolase family 127 C-terminal domain

X: EV matrix protein

X: LigT-like

X: Urease metallochperone UreE-N

X: Target recognition domain of zoocin A

X: Polymyxin B resistance protein

X: Cuben fold of PcncAAAD

X: OB-fold

X: GroES-like

X: Uncharacterized protein Dsy0195

X: SH3

H: SH3

H: TrmB C-terminal domain-like

H: Dom34/Pelota N-terminal domain-like

H: GatD N-terminal domain-like

H: Plus3

H: SAND

H: PRC-barrel domain

H: RNase P subunit p29

H: Central WYL domain of RspWYL1

H: Chromo domain-like

H: ImpE-like

H: PhtA domain-like

H: Fumarylacetoacetate hydrolase, FAH, N-terminal domain

H: LexA/Signal peptidase

H: Methuselah ectodomain

H: Hypothetical protein ORF131

H: PA1645

H: Tas1 immunity protein PA14_01130

H: Auxin response factor dimerization domain and ancillary domain

H: Chromatin protein Cren7

H: Mitoribosomal protein mS34

H: Hantavirus structural glycoprotein Gn ectodomain subdomain II

T: Hantavirus structural glycoprotein Gn ectodomain subdomain II

F: Hanta_Gn-H

PF01567 CL0159

Representatives:

e5fxuB2[B:185-292,B:369-382] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ENVELOPE POLYPROTEIN ; X-RAY DIFFRACTION 2.28Å

e5fynA2[A:185-292,A:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PUUMALA VIRUS GN GLYCOPROTEIN ; ELECTRON MICROSCOPY

e5fynB1[B:185-292,B:369-382] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PUUMALA VIRUS GN GLYCOPROTEIN ; ELECTRON MICROSCOPY

e5fxuA2[A:185-292,A:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ENVELOPE POLYPROTEIN ; X-RAY DIFFRACTION 2.28Å

e5opgA2[A:177-282,A:359-371] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

envelope glycoprotein Gn ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 2.150Å

e6y5fA2[A:181-285,A:362-374] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein,Envelope polyprotein ; X-RAY DIFFRACTION 3.200Å

e6y62A2[A:181-285,A:362-374] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein,Envelope polyprotein ; X-RAY DIFFRACTION 2.200Å

e6y5wA2[A:181-285,A:362-374] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein,Envelope polyprotein ; X-RAY DIFFRACTION 2.550Å

e6y6pA3[A:158-263,A:340-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; X-RAY DIFFRACTION 1.938Å

e7b09B2[B:185-292,B:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ELECTRON MICROSCOPY

e7b0aB3[B:185-292,B:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ELECTRON MICROSCOPY

e7b0aG3[G:185-292,G:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ELECTRON MICROSCOPY

e7o9sA1[A:177-282,A:359-371] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ligands: NAG ; X-RAY DIFFRACTION 2.700Å

e7nksB1[B:177-282,B:359-372] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.5Å

e7nksA1[A:177-282,A:359-371] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; X-RAY DIFFRACTION 3.5Å

e7nrhA2[A:177-282,A:359-371] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ELECTRON MICROSCOPY

e8dbzA3[A:210-285,A:362-368] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glycoprotein N ; ELECTRON MICROSCOPY

e8ahnA2[A:181-286,A:363-374] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Envelope polyprotein ; ligands: NAG ; X-RAY DIFFRACTION 1.800Å

e7qqbA1[A:185-292,A:369-381] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ligands: GOL ; X-RAY DIFFRACTION 2.600Å

H: Pyrrolysyl-tRNA synthetase tRNA binding domain

H: Insertion domain of baseplate gp8

H: Replicase polyprotein 1a N-terminal beta barrel domain

H: VP5 C-terminal C1 domain

X: IL8-related

X: UL131A-like

X: UL128 C-terminal domain

X: Cell division protein ZapC N-terminal domain

X: hypothetical protein TTMA177

X: Hantavirus structural glycoprotein Gn ectodomain subdomain III

X: MutM N-terminal domain-like

X: Ribosomal protein L14-like

X: YopX, C-terminal domain-like

X: VC0467-like

X: MMP1218-like

X: MFPT repeat

X: Barrel domain in upper collar protein

X: barrel domain in putative modulator of DNA gyrase, PmbA/TldD

X: beta-barrel domain in acetyl-CoA synthetase-like proteins

X: FimD N-terminal domain-like

X: Micronemal adhesive repeat

X: Coronavirus NSP8-like

X: PDZ domain

X: all-beta domain in DNA topoisomerase IV alpha subunit

X: hypothetical protein PA3229

X: beta-clip

X: Cyclophilin-like

X: SPOC domain-like

X: Herpes virus serine proteinase, assemblin

X: Oncogene product-like

X: Mannose 6-phosphate receptor domain

X: FMT C-terminal domain-like

X: Sortase

X: XRCC4, N-terminal domain-like

X: Virulence associated protein B (Vapb)

X: BH3618-like

X: GspC HR domain/PilP-like

X: CRISPR-Cas effector Cas13d N-terminal domain

X: Lipocalins/Streptavidin

X: YmcC-like

X: Lysosome membrane protein 2 lumenal domain

X: Handle domain in transferrin-binding protein B

X: Rubella virus capsid protein C-terminal domain

X: Single-stranded DNA-binding protein DdrB

X: Allergen Alt a 1

X: FomD-like

X: Outer membrane meander beta-barrels

X: secretin domain

X: Factor H-binding protein (fHbp) N-terminal beta-barrel domain

X: STT3/PglB/AglB beta-barrel domain

X: Acetoacetate decarboxylase-like

X: AttH-like

X: Barrel domain in heme-dependent catalases

X: WWE domain

X: GFP-like

X: Transcriptional factor tubby, C-terminal domain

X: Oxysterol-binding protein

X: CBF-like

X: NifT/FixU

X: barrel domain in CV3147-like proteins

X: Pfam PF06938 (DUF1285)

X: PH domain-like

X: Internal protein I

X: LARA domain

X: Restriction endonuclease PabI

X: N-terminal domain in DUF2118 family

X: Pestivirus Npro endopeptidase C53

X: Repulsive guidance molecule (RGM) family

X: V1/V2 domain in HIV gp120

beta meanderssingle beta-sheet with mainly meander topology

beta sandwichestwo beta-sheets stacked together to form a sandwich

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