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

X: Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin-like

X: Hypothetical protein SF216

X: Indoleamine 2,3-dioxygenase N-terminal subdomain

X: Repetitive alpha hairpins

H: Glutathione S-transferase (GST)-C

H: alpha/alpha toroid

H: Ankyrin repeat

H: Pseudo ankyrin repeat

H: ARM repeat

H: RPAP3 C-terminal domain-like

H: Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains

H: adenylylcyclase associated protein, CAP-N

H: Ras GEF

H: Cytochrome c oxidase subunit E

H: Arp2/3 complex 16 KDa subunit ARPC5

H: Hypothetical protein ST1625

H: MgtE N-terminal domain-like

H: TROVE domain-like

H: Translin

H: C-terminal domain of Ku80

H: Proteasome activator BLM10

H: Immunity Factor for SPN

H: Nucleoporin Nup84/Nup107

H: Coatomer subunit alpha C-terminal domain

H: Nucleoporin NUP85/Nucleoporin NUP145 C-terminal domain

H: Survival of motor neuron protein-interacting protein 1

H: C-terminal domain in vacuolar protein sorting-associated protein 54

H: Helical domain in dedicator of cytokinesis protein 9

H: GPCR-autoproteolysis inducing domain subdomain A

H: BACK domain

H: EssB extracellular domain

H: Chloroplast inner membrane protein TIC110

H: Alkylsulfatase SdsA1 linker domain

H: TIR domain-containing adapter molecule 1 N-terminal domain

H: 26S proteasome subunit Rpn2 N-terminal domain

H: Proteasome/cyclosome (PC) repeat

T: Proteasome/cyclosome (PC) repeat

F: PC_rep

PF01851 CL0020

Representatives:

e4adyA2[A:308-755] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S PROTEASOME REGULATORY SUBUNIT RPN2 ; X-RAY DIFFRACTION 2.70Å

e4ui9A2[A:1013-1616] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ANAPHASE-PROMOTING COMPLEX SUBUNIT 1 ; ELECTRON MICROSCOPY

e8tauA2[A:1009-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e5lcwA3[A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e5gjqZ3[Z:350-618,Z:653-827] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5g04A1[A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ANAPHASE-PROMOTING COMPLEX SUBUNIT 1 ; ELECTRON MICROSCOPY

e4cr2Z1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S PROTEASOME REGULATORY SUBUNIT RPN1 ; ELECTRON MICROSCOPY

e4cr3Z2[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S PROTEASOME REGULATORY SUBUNIT RPN1 ; ELECTRON MICROSCOPY

e4cr4Z1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S PROTEASOME REGULATORY SUBUNIT RPN1 ; ELECTRON MICROSCOPY

e5a5bZ2[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S PROTEASOME REGULATORY SUBUNIT RPN1 ; ELECTRON MICROSCOPY

e5a31A1[A:986-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ANAPHASE-PROMOTING COMPLEX SUBUNIT 1 ; ELECTRON MICROSCOPY

e5g05A1[A:991-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ANAPHASE-PROMOTING COMPLEX SUBUNIT 1 ; ELECTRON MICROSCOPY

e3jcoZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e3jcpZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e5gjrZ3[Z:350-618,Z:653-827] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5gjrAC2[AC:350-618,AC:653-827] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5khuA1[A:985-986,A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e5l9uA1[A:985-986,A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e5l9tA3[A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e5khrA3[A:1013-1333,A:1354-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e5wviZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e5wvkZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e5ln3Z2[Z:350-617,Z:650-827] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5mpcZ3[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e5mpdZ2[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6fvuZ2[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6fvvZ3[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6fvxZ3[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6fvyZ1[Z:359-635,Z:700-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6j2cZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6j2qZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6j2xZ2[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6j2nZ1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6j30Z1[Z:359-625,Z:736-910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN1 ; ELECTRON MICROSCOPY

e6q6gA5[A:1010-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1,Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e6q6hA3[A:1010-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Apc1 ; ELECTRON MICROSCOPY

e5t0cAf3[Af:350-853] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5t0cBf3[Bf:350-853] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5t0gf3[f:191-694] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5t0hf3[f:191-694] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5t0if3[f:191-694] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5t0jf3[f:191-694] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhff2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhhf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhif3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhjf3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhmf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhnf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhof2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhpf3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhqf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhrf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vhsf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vfpf3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vfqf3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vfrf3[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vfsf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vftf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e5vfuf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e6tljA1[A:1013-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e6tm5A2[A:991-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e6wjnf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e6tntA5[A:991-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e7qe7A3[A:1009-1616] Image Pymol Jmol Links: PDB, SCOP, CATH

Anaphase-promoting complex subunit 1 ; ELECTRON MICROSCOPY

e8cvtf2[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e7qy7f1[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e7qyaf1[f:350-804] Image Pymol Jmol Links: PDB, SCOP, CATH

26S proteasome non-ATPase regulatory subunit 2 ; ELECTRON MICROSCOPY

e8pkpA5[A:991-1616] Image Pymol Jmol Links: PDB, SCOP, CATH

; ELECTRON MICROSCOPY

e8tarA2[A:1009-1616] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e5mpbN3[N:308-755,N:788-822] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

26S proteasome regulatory subunit RPN2 ; ELECTRON MICROSCOPY

F: PC_rep,RPN1_C

PF01851 PF18051

F: PC_rep,RPN2_C

PF01851 PF18004

H: Protein transport protein SEC39

H: Anion channel SLAC1-related

H: Telomere length regulation protein TEL2

H: transcription anti-terminator antagonist UpxZ

H: DNA polymerase alpha-binding protein Ctf4 C-terminal domain

H: Ribosomal protein S12 methylthiotransferase accessory factor YcaO C-terminal domain

H: E3 ubiquitin-protein ligase SHPRH first helical domain

H: Helical insertion in sensor domain of histidine kinase VC_A0565

H: Anaphase-promoting complex subunit 1 first helical domain

H: Anaphase-promoting complex subunit 1 second helical domain

H: Helical domain in TOPLESS related protein 2 (TPR2)

H: Helical C-terminal domain in magnesium chelatase catalytic subunit

H: Taz1 helical domain

H: Helical domain in acetyl-CoA carboxylase

H: Pre-mRNA-splicing factor 38A

H: TssA helical domains

H: FRIGIDA flowering-time regulator

H: Peptidoglycan deacetylase Bd3279 N-terminal domain

H: C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13

H: Immunity protein CdiI

H: Uncharacterized protein LPG1670

H: Sterol regulatory element-binding protein 1 (Sre1) C-terminal domain

H: DNA repair protein Rev1 C-terminal domain

H: Uncharacterized protein PF2048.1

H: Intraflagellar transport protein 80 (IFT80) C-terminal domain

H: AFF4 C-terminal homology domain

X: C-terminal domain of SidJ

X: N-terminal domain of P-granule protein

X: Cdc45-Binding Domain in Sld3/Treslin

X: Putative 3-oxoacyl-(acyl-carrier-protein) synthase N-terminal domain

X: Helical domain in conserved hypothetical protein Rv3899c

X: RidL repeats

X: Mitochondrial malonyl-CoA decarboxylase helical domain

X: Apoptotic protease-activating factor 1 (Apaf-1) helical domain

X: UL37 N-terminal half

X: Taf5 N-terminal domain-like

X: Cytochrome c oxidase subunit I-like

X: C-terminal domain of alpha and beta subunits of F1 ATP synthase

X: 1-deoxy-D-xylulose-5-phosphate reductoisomerase-C

X: BH3980-like

X: alpha-helical domain in siroheme synthase middle domains-like

X: Peptide N-methyltransferase C-terminal helical domain

X: Alpha-helical domain in virulence-associated V antigen

X: Middle domain of Hypothetical protein MPN330

X: NLRC4 helical domain HD2

X: Mitochondrial mTERF-like

X: Effector protein SidK

X: Surface cell antigen Sca2 helical repeats

X: N-terminal fragment of dynein heavy chain

X: Linker domain of cytoplasmic dynein heavy chain

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

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