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

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

X: SRF-like

X: Fe,Mn superoxide dismutase (SOD)-C

X: Nigritoxin middle domain

X: Mitochondrial complex I, B17.2 subunit

X: Gelsolin-like

X: GIY-YIG endonuclease

X: N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1

X: Regulatory factor Nef

X: Hut operon positive regulatory protein HutP

X: Mitochondrial homologous recombination protein 1

X: Nucleotidyltransferase-like

X: N-terminal a+b domain in adenylylcyclase toxin

X: a+b domain in Rap/Ran-GAP (Pfam 02145)

X: C-terminal segment in 5'->3' exoribonucleases

X: Profilin-like

X: Sensor domain of histidine kinase VC_A0565

X: Nonstructural protein V

X: Putative sensor histidine kinase domain

X: a+b domain in antivirulence factor

X: HIT-like

X: DUF1827-like

X: PR-1-like

X: L-sulfolactate dehydrogenase-like

X: AraD-like aldolase/epimerase

X: N-acetylmuramoyl-L-alanine amidase-like

X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4

X: Cryptic loci regulator 2 N-terminal domain

X: thylakoid acid phosphatase domain-related

X: Thioredoxin-like

X: Thioredoxin-like domain in RNase E

X: Major capsid protein GP7

X: Bacillus chorismate mutase-like

X: CofE-like

X: a+b domain in conserved hypothetical protein Rv3899c

X: Cytidine deaminase-like

X: Phospholipase D/nuclease

X: Phoshotransferase/anion transport protein

X: Mid-cell-anchored protein Z (MapZ) extracellular domain 2

X: Class II aaRS and biotin synthetases

X: Protein interacting with HSP90 1 (Pih1) N-terminal domain

X: Suppressor of Fused, N-terminal domain

X: Suppressor of Fused, C-terminal domain

X: Hypothetical protein MTH1880

X: Hypothetical protein Ta1206-like

X: CytB endotoxin-like (Pfam 01338)

X: Coproporphyrinogen III oxidase

X: Mog1p/PsbP-like

X: Two-component system yycF/yycG regulatory protein yycH-like

X: B12-dependent (class II) ribonucleotide reductase, insertion domain

X: CorA soluble domain-like

X: DeoB insert domain-like

X: DisA nucleotide-binding domain

X: Coronavirus spike protein receptor-binding domain

H: Coronavirus spike protein receptor-binding domain

T: Beta-coronavirus spike protein receptor-binding domain

T: Alpha-coronavirus spike protein receptor-binding domain

F: CoV_S1

PF01600

Representatives:

e3kbhE1[E:482-602] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.3Å

e4f2mE1[E:507-654] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPIKE PROTEIN ; ligands: NAG ; X-RAY DIFFRACTION 3.0Å

e4f5cE1[E:283-430] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PRCV SPIKE PROTEIN ; ligands: NAG ; X-RAY DIFFRACTION 3.2Å

e3kbhF1[F:482-602] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.3Å

e3kbhG1[G:482-602] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.3Å

e3kbhH1[H:482-602] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.3Å

e4f2mF1[F:507-654] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPIKE PROTEIN ; ligands: NAG ; X-RAY DIFFRACTION 3.0Å

e4f5cF1[F:283-429] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PRCV SPIKE PROTEIN ; ligands: NAG ; X-RAY DIFFRACTION 3.2Å

e6b7nB4[B:287-422] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6b7nC4[C:287-422] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6bfuA2[A:287-422] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6bfuB4[B:287-422] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6bfuC3[C:287-422] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

e6atkE1[E:298-431] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.5Å

e6atkD1[D:305-412] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 3.5Å

e6u7hA2[A:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6u7hB4[B:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6u7hC3[C:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6u7eC1[C:302-416] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 2.990Å

e6u7eD1[D:298-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 2.990Å

e6u7fC1[C:302-415] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 2.750Å

e6u7fD1[D:302-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; X-RAY DIFFRACTION 2.750Å

e6u7gC1[C:299-420] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 2.3490Å

e6u7gD1[D:302-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 2.3490Å

e6vv5A4[A:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6vv5B3[B:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6vv5C5[C:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6ixaA1[A:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixaB4[B:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixaC4[C:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbA3[A:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbB3[B:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e6ixbC4[C:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH

; ligands: NAG

e7kipA2[A:476-618] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7kipB2[B:476-618] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7kipC4[C:476-618] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cycA3[A:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cycB4[B:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cycC4[C:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydA4[A:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydB2[B:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7cydC4[C:281-433] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7vppB1[B:305-407] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 2.69Å

e7vpqB1[B:305-407] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 3.10Å

e7vpqD1[D:305-407] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 3.10Å

e7vpqF1[F:305-407] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; X-RAY DIFFRACTION 3.10Å

e7u0lB1[B:522-668] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; X-RAY DIFFRACTION 3.3Å

e7y6tB5[B:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7y6uA2[A:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7y6vA3[A:504-640] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e7vn9E1[E:296-435] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein S1 ; X-RAY DIFFRACTION 4.49Å

e7vn9C1[C:297-431] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein S1 ; ligands: NAG ; X-RAY DIFFRACTION 4.49Å

e7vngD1[D:299-430] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein S1 ; ligands: NAG ; X-RAY DIFFRACTION 3.65Å

e5szsA3[A:476-618] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike glycoprotein ; ligands: NAG ; ELECTRON MICROSCOPY

e6b7nA2[A:300-423] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Spike protein ; ligands: NAG ; ELECTRON MICROSCOPY

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.

X: C-terminal domain in DHH phosphoesterases

X: PlyCB

X: Surfactant protein C BRICHOS domain

X: Late genes activator p4

X: AF1514-like

X: YehU-like

X: Nat/Ivy

X: Integron cassette protein VCH_CASS3

X: Polymerase basic protein 2 cap-binding domain

X: A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases

X: ESX-1 secretion system protein eccB1 modular domains

X: Fibrinogen binding protein a+b domain

X: C-terminal domain of N-acetylglucosaminyltransferase-V

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