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

H: EscU C-terminal domain-like

T: EscU C-terminal domain-like

F: Bac_export_2

PF01312

Representatives:

e3bzy.1[A:246-262,B:263-345] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: SO4 ; X-RAY DIFFRACTION 1.200Å

e3bzx.1[A:246-262,B:263-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: SO4 ; X-RAY DIFFRACTION 1.600Å

e3bztA1[A:246-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.500Å

e3c03A1[A:247-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: PRO ; X-RAY DIFFRACTION 1.900Å

e3bzl.1[A:246-262,C:263-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: NA ; X-RAY DIFFRACTION 1.710Å

e3bzpA1[A:246-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.499Å

e3bzrA1[A:246-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.646Å

e3bzz.1[A:246-262,B:263-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.407Å

e3c01.1[A:239-258,E:259-340] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Surface presentation of antigens protein spaS ; ligands: CYS,SO4 ; X-RAY DIFFRACTION 2.600Å

e3t7yA1[A:249-342] Image Pymol Jmol Links: PDB, SCOP, CATH

YOP PROTEINS TRANSLOCATION PROTEIN U ; ligands: CL,FMT,NA,SIN ; X-RAY DIFFRACTION 2.1Å

e2jlhA1[A:231-344] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YOP PROTEINS TRANSLOCATION PROTEIN U ; ligands: 1PE ; X-RAY DIFFRACTION 1.53Å

e3b0zB1[B:270-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein flhB ; ligands: NA ; X-RAY DIFFRACTION 2.45Å

e3bzsA1[A:248-341] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.480Å

e2jliA1[A:240-339] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YOP PROTEINS TRANSLOCATION PROTEIN ; X-RAY DIFFRACTION 1.13Å

e2v5gA1[A:222-341] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YSCU ; ligands: CL ; X-RAY DIFFRACTION 2.05Å

e2w0rA1[A:222-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YSCU ; ligands: CL ; X-RAY DIFFRACTION 1.55Å

e2jljA1[A:230-344] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YOP PROTEINS TRANSLOCATION PROTEIN U ; X-RAY DIFFRACTION 1.3Å

e3t7yB1[B:249-342] Image Pymol Jmol Links: PDB, SCOP, CATH

YOP PROTEINS TRANSLOCATION PROTEIN U ; ligands: CL,FMT,NA ; X-RAY DIFFRACTION 2.1Å

e3b1s.1[A:232-263,B:264-348] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein flhB ; X-RAY DIFFRACTION 2.55Å

e3b1s.2[C:232-263,D:264-347] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein flhB ; X-RAY DIFFRACTION 2.55Å

e3b1s.4[E:232-263,F:264-344] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein flhB ; X-RAY DIFFRACTION 2.55Å

e3b0z.1[A:230-269,B:270-281,B:348-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein flhB ; ligands: NA,ZN ; X-RAY DIFFRACTION 2.45Å

e5culB1[B:48-126] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translocation protein in type III secretion ; X-RAY DIFFRACTION 2.90Å

e3c01F1[F:259-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Surface presentation of antigens protein spaS ; ligands: CYS,SO4 ; X-RAY DIFFRACTION 2.600Å

e3bzlD1[D:263-344] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.710Å

e3c01G1[G:259-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Surface presentation of antigens protein spaS ; ligands: CYS,MPD,SO4 ; X-RAY DIFFRACTION 2.600Å

e3c01H1[H:259-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Surface presentation of antigens protein spaS ; ligands: CYS,SO4 ; X-RAY DIFFRACTION 2.600Å

e3bzo.2[A:246-262,B:264-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: SO4 ; X-RAY DIFFRACTION 1.500Å

e3c03.2[B:245-262,C:264-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: PRO ; X-RAY DIFFRACTION 1.900Å

e3c00.2[A:244-262,B:263-345] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.410Å

e3bzv.2[A:239-262,B:264-343] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; X-RAY DIFFRACTION 1.940Å

e6ejpD1[D:364-453] Image Pymol Jmol Links: PDB, SCOP, CATH

Yop proteins translocation protein U ; ligands: B8E ; X-RAY DIFFRACTION 2.48Å

e6ejpC1[C:364-450] Image Pymol Jmol Links: PDB, SCOP, CATH

Yop proteins translocation protein U ; ligands: B8E,CL,NA,PO4 ; X-RAY DIFFRACTION 2.48Å

e6z0wB1[B:251-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein FlhB ; X-RAY DIFFRACTION 2.1Å

e6z0wD1[D:252-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein FlhB ; X-RAY DIFFRACTION 2.1Å

e6z0wA1[A:252-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein FlhB ; X-RAY DIFFRACTION 2.1Å

e6z0wC1[C:252-353] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Flagellar biosynthetic protein FlhB ; X-RAY DIFFRACTION 2.1Å

e6ejpA1[A:211-263] Image Pymol Jmol Links: PDB, SCOP, CATH

Yop proteins translocation protein U ; ligands: CL,PO4 ; X-RAY DIFFRACTION 2.48Å

e6ejpB1[B:213-263] Image Pymol Jmol Links: PDB, SCOP, CATH

Yop proteins translocation protein U ; ligands: PO4 ; X-RAY DIFFRACTION 2.48Å

e3bzlB1[B:209-262] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EscU ; ligands: FMT ; X-RAY DIFFRACTION 1.710Å

e2vt1.1[A:237-257,B:258-338] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SURFACE PRESENTATION OF ANTIGENS PROTEIN SPAS ; X-RAY DIFFRACTION 2.00Å

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: 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

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