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
looks like an elaborated ferredoxin
contains a HTH motif
Representatives:
e2ywqA1[A:1-95] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH
RIBOSOMAL SUBUNIT INTERFACE PROTEIN ; X-RAY DIFFRACTION 2.64Å
e1l4sA1[A:1-112] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Protein yfiA ; SOLUTION NMR
e8fc12y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e8fc22y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e8fc32y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; X-RAY DIFFRACTION 2.600Å
e8fc42y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.450Å
e8fc52y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.650Å
e8fc62y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.350Å
e8fmwW1[W:1-97] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ELECTRON MICROSCOPY
e8t8b2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.650Å
e8t8c2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.600Å
e8fc21y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e8fc31y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.600Å
e8fc51y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.650Å
e8fc61y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.350Å
e8t8c1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.600Å
e1n3gA1[A:2-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Protein yfiA ; SOLUTION NMR
e1imuA1[A:2-107] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
HYPOTHETICAL PROTEIN HI0257 ; SOLUTION NMR
e2ywqC1[C:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH
RIBOSOMAL SUBUNIT INTERFACE PROTEIN ; X-RAY DIFFRACTION 2.64Å
e2ywqB1[B:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH
RIBOSOMAL SUBUNIT INTERFACE PROTEIN ; X-RAY DIFFRACTION 2.64Å
e2ywqD1[D:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH
RIBOSOMAL SUBUNIT INTERFACE PROTEIN ; X-RAY DIFFRACTION 2.64Å
e2rqlA1[A:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Probable sigma-54 modulation protein ; SOLUTION NMR
e3tqmA1[A:1-91] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated factor Y ; ligands: SO4 ; X-RAY DIFFRACTION 2.45Å
e3v2cY1[Y:2-104] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
; ligands: MG
e3v26X1[X:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e1voqa1[a:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e1vosa1[a:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e1vova1[a:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e1voxa1[a:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e1voza1[a:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e3tqmB1[B:1-92] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated factor Y ; ligands: SO4 ; X-RAY DIFFRACTION 2.45Å
e3tqmC1[C:1-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated factor Y ; ligands: SO4 ; X-RAY DIFFRACTION 2.45Å
e3tqmD1[D:1-93] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated factor Y ; ligands: SO4 ; X-RAY DIFFRACTION 2.45Å
e3v2eY1[Y:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e3v28X1[X:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e4fylA1[A:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e4heiA1[A:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
RIBOSOME HIBERNATION PROTEIN YHBH ; ligands: 3CO,SCN,UNL ; X-RAY DIFFRACTION 1.600Å
e4heiB2[B:1-91] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
RIBOSOME HIBERNATION PROTEIN YHBH ; ligands: 3CO,SCN,UNL ; X-RAY DIFFRACTION 1.600Å
e4fylB2[B:1-91] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB
e4v4gAa1[Aa:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein Y ; X-RAY DIFFRACTION 11.5Å
e4v4gCa1[Ca:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein Y ; X-RAY DIFFRACTION 11.5Å
e4v4gEa1[Ea:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein Y ; X-RAY DIFFRACTION 11.5Å
e4v4gGa1[Ga:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein Y ; X-RAY DIFFRACTION 11.5Å
e4v4gIa1[Ia:1-90] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein Y ; X-RAY DIFFRACTION 11.5Å
e4v8iAY1[AY:2-96] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: MG ; X-RAY DIFFRACTION 2.700Å
e4v8iCY1[CY:3-96] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; X-RAY DIFFRACTION 2.700Å
e4v8hAX1[AX:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Probable sigma(54) modulation protein ; X-RAY DIFFRACTION 3.100Å
e4v8hCX1[CX:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Probable sigma(54) modulation protein ; X-RAY DIFFRACTION 3.100Å
e4y4o1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.300Å
e4y4o2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.300Å
e5fdu2x1[2x:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; X-RAY DIFFRACTION 2.900Å
e5fdv2x1[2x:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; X-RAY DIFFRACTION 2.800Å
e5fdu1x1[1x:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: A,MG ; X-RAY DIFFRACTION 2.900Å
e5fdv1x1[1x:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: A,MG ; X-RAY DIFFRACTION 2.800Å
e5mmmy1[y:68-183] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-binding factor PSRP1, chloroplastic ; ELECTRON MICROSCOPY
e5mmjy1[y:68-183] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-binding factor PSRP1, chloroplastic ; ELECTRON MICROSCOPY
e5x8ry1[y:70-177] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein plastid pY ; ELECTRON MICROSCOPY
e5njtx1[x:1-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e5x8py1[y:70-177] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
protein plastid pY ; ELECTRON MICROSCOPY
e5nd8v1[v:4-101] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e5nd9v1[v:4-104] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e5ng8Av1[Av:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH
e5ng8Bv1[Bv:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH
e5ngmAv1[Av:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e5myjA2[A:1-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e6eriBV1[BV:73-178] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-binding factor PSRP1, chloroplastic ; ELECTRON MICROSCOPY
e6cfk1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.700Å
e6cfk2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; X-RAY DIFFRACTION 2.700Å
e6cfl2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Protein Y ; X-RAY DIFFRACTION 2.600Å
e6cfl1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Protein Y ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.600Å
e5v8i1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 3.250Å
e6fxcAv1[Av:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e6fxcBv1[Bv:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promotion factor ; ELECTRON MICROSCOPY
e5v8i2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 3.250Å
e6fkr1z1[1z:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: MG ; X-RAY DIFFRACTION 3.200Å
e6fkr2z1[2z:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: MG ; X-RAY DIFFRACTION 3.200Å
e6dzkY1[Y:1-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6dziY1[Y:1-103] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6h4nx1[x:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e5zepx1[x:31-130] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6h58x1[x:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6h58xx1[xx:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6gzzV41[V4:2-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6qbzA1[A:1-110] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; SOLUTION NMR
e6s0xv2[v:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6s13v1[v:2-106] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6gzqV21[V2:2-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6y69x1[x:1-95] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome hibernation promoting factor ; ELECTRON MICROSCOPY
e6xhx2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.550Å
e6xhx1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.550Å
e7md71y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.800Å
e7md72y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.800Å
e7m4zv1[v:1-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosomal subunit interface protein ; ligands: MG ; ELECTRON MICROSCOPY
e7rqa1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.400Å
e7rqa2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; X-RAY DIFFRACTION 2.400Å
e7rqb2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.450Å
e7rqc2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e7rqd2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e7rqe2y1[2y:3-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.400Å
e7rqb1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.450Å
e7rqc1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e7rqd1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e7rqe1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ribosome-associated inhibitor A ; ligands: ARG,MG ; X-RAY DIFFRACTION 2.400Å
e8fc11y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.500Å
e8t8b1y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.650Å
e8fc41y1[1y:2-98] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ARG,MG ; X-RAY DIFFRACTION 2.450Å
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