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X - Possible homology level

H - Homology level

T - Topology level

F - Family level

* - Provisional representative


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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: Outer membrane meander beta-barrels
H: Porins
T: Porin
F: Porin_4

PF13609 CL0193

Representatives:

e2fgqX1[X:3-332] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane porin protein 32 ; ligands: BOG,CA,MLT,SO4 ; X-RAY DIFFRACTION 1.45Å

e2fgrA1[A:3-332] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane porin protein 32 ; ligands: CA,SO4 ; X-RAY DIFFRACTION 1.5Å

e1e54A1[A:3-332] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OUTER MEMBRANE PORIN PROTEIN 32 ; ligands: CA,SO4 ; X-RAY DIFFRACTION 2.100Å

e6ehbA1[A:1-320] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein U ; ligands: C8E ; X-RAY DIFFRACTION 1.55Å

e6ehbB1[B:1-320] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein U ; ligands: C8E ; X-RAY DIFFRACTION 1.55Å

e6ehbC1[C:1-320] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein U ; ligands: C8E ; X-RAY DIFFRACTION 1.55Å

e6ehcA1[A:12-320] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein U ; ligands: C8E ; X-RAY DIFFRACTION 2.02Å

e6ehcB1[B:12-320] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein U ; ligands: C8E ; X-RAY DIFFRACTION 2.02Å

e5onuA1[A:32-351] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein OmpU ; ligands: C8E,GOL,LDA ; X-RAY DIFFRACTION 2.22Å

e5mdqA1[A:1-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NA ; X-RAY DIFFRACTION 2.50Å

e5onuB1[B:32-351] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein OmpU ; ligands: C8E,GOL,LDA ; X-RAY DIFFRACTION 2.22Å

e5onuC1[C:32-351] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Outer membrane protein OmpU ; ligands: C8E,GOL,LDA ; X-RAY DIFFRACTION 2.22Å

e5mdoA1[A:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdoB1[B:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdoC1[C:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdoD1[D:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdoE1[E:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdoF1[F:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 1.95Å

e5mdpA1[A:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; X-RAY DIFFRACTION 3.08Å

e5mdpB1[B:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; X-RAY DIFFRACTION 3.08Å

e5mdpC1[C:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; X-RAY DIFFRACTION 3.08Å

e5mdqB1[B:1-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NA ; X-RAY DIFFRACTION 2.50Å

e5mdqC1[C:1-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NA ; X-RAY DIFFRACTION 2.50Å

e5mdrA1[A:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdrB1[B:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdrC1[C:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdrD1[D:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdrE1[E:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdrF1[F:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 1.90Å

e5mdsA1[A:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NAG ; X-RAY DIFFRACTION 2.60Å

e5mdsB1[B:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NAG ; X-RAY DIFFRACTION 2.60Å

e5mdsC1[C:10-350] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitoporin ; ligands: NAG ; X-RAY DIFFRACTION 2.60Å

e7eqmA1[A:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,MG,NA ; X-RAY DIFFRACTION 2.500Å

e7eqmB1[B:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: MG,NA ; X-RAY DIFFRACTION 2.500Å

e7eqmC1[C:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,MG,NA ; X-RAY DIFFRACTION 2.500Å

e7eqrA1[A:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7eqrB1[B:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7eqrC1[C:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7eqrD1[D:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7eqrE1[E:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7eqrF1[F:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA,NAG ; X-RAY DIFFRACTION 2.700Å

e7x5pA1[A:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,DXT,NA ; X-RAY DIFFRACTION 3.4Å

e7x5pB1[B:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,DXT,NA ; X-RAY DIFFRACTION 3.4Å

e7x5pC1[C:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 3.4Å

e7x5pD1[D:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,DXT,NA ; X-RAY DIFFRACTION 3.4Å

e7x5pE1[E:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 3.4Å

e7x5pF1[F:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,DXT,NA ; X-RAY DIFFRACTION 3.4Å

e7x5qA1[A:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 2.7Å

e7x5qB1[B:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 2.7Å

e7x5qC1[C:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 2.7Å

e7x5qD1[D:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 2.7Å

e7x5qE1[E:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: NA ; X-RAY DIFFRACTION 2.7Å

e7x5qF1[F:20-350] Image Pymol Jmol Links: PDB, SCOP, CATH

Chitoporin ; ligands: C8E,NA ; X-RAY DIFFRACTION 2.7Å

e6ehdA1[A:1-325] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OmpT protein ; ligands: C8E,MES ; X-RAY DIFFRACTION 1.66Å

e6eheA1[A:7-310] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OmpT protein ; ligands: ACT,C8E,MG ; X-RAY DIFFRACTION 2.31Å

e6ehfA1[A:7-325] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OmpT protein ; ligands: CA ; X-RAY DIFFRACTION 2.72Å

e5oykA1[A:2-325] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Gram-negative porin family protein ; X-RAY DIFFRACTION 3.2Å

e3prnA1[A:1-289] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed,

PORIN ; ligands: C8E,MG ; X-RAY DIFFRACTION 1.90Å

e2porA1[A:1-301] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PORIN ; ligands: C8E,CA ; X-RAY DIFFRACTION

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.

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