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

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

X: Rossmann-like

H: Rossmann-related

T: NAD(P)-binding Rossmann-fold domains

F: GDP_Man_Dehyd

F: THF_DHG_CYH_C

F: IlvN

F: ApbA

F: DapB_N,DapB_C

F: DUF364

F: BK_channel_a,Slo-like_RCK

F: adh_short

F: CoA_binding

F: F420_oxidored

F: Glu_dehyd_C

F: Semialdhyde_dh

F: NAD_binding_5

F: HcgC

F: NamZ_N

F: PDH_N

F: Oxidoreduct_C

F: ADH_zinc_N_2

F: adh_short_C2

F: DFP

F: NAD_binding_3

F: Polysacc_synt_2,Polysacc_syn_2C

PF02719 PF08485

F: Sacchrp_dh_NADP,Sacchrp_dh_C

F: Gp_dh_N

F: Shikimate_DH

F: 3Beta_HSD

F: KR

Representatives:

e2fr1A1[A:1657-1915] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

erythromycin synthase, EryAI ; ligands: NDP ; X-RAY DIFFRACTION 1.79Å

e3qp9A1[A:222-500] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TYPE I POLYKETIDE SYNTHASE PIKAII ; X-RAY DIFFRACTION 1.88Å

e3mjcA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; X-RAY DIFFRACTION 1.48Å

e3qp9C1[C:221-494] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TYPE I POLYKETIDE SYNTHASE PIKAII ; X-RAY DIFFRACTION 1.88Å

e3qp9D2[D:221-492] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TYPE I POLYKETIDE SYNTHASE PIKAII ; X-RAY DIFFRACTION 1.88Å

e4difA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH

AMPHB ; ligands: NDP ; X-RAY DIFFRACTION 1.52Å

e2fr0A1[A:1657-1915] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Erythromycin synthase, EryAI ; ligands: NDP ; X-RAY DIFFRACTION 1.81Å

e2z5lA1[A:230-488] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tylactone synthase starter module and modules 1 & 2 ; X-RAY DIFFRACTION 1.95Å

e3mjcB1[B:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; ligands: GOL ; X-RAY DIFFRACTION 1.48Å

e3mjeA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; ligands: NDP ; X-RAY DIFFRACTION 1.36Å

e3mjeB1[B:208-472] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; ligands: GOL,NDP ; X-RAY DIFFRACTION 1.36Å

e3mjsA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; ligands: GOL,LMR,MLT,NDP ; X-RAY DIFFRACTION 1.4Å

e3mjsB1[B:208-472] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHB ; ligands: GOL,MLT,NDP ; X-RAY DIFFRACTION 1.4Å

e3mjtA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: GOL,NDP ; X-RAY DIFFRACTION 1.600Å

e3mjvA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: NDP ; X-RAY DIFFRACTION 1.460Å

e3mjvB1[B:208-472] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: NDP ; X-RAY DIFFRACTION 1.460Å

e3mjtB1[B:208-472] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: GOL,NDP ; X-RAY DIFFRACTION 1.600Å

e2vz9A8[A:1876-2113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FATTY ACID SYNTHASE ; ligands: NAP ; X-RAY DIFFRACTION 3.3Å

e4impC5[C:273-529] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYKETIDE SYNTHASE EXTENDER MODULES 3-4 ; ligands: NDP ; X-RAY DIFFRACTION 2.57Å

e4impD5[D:273-529] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYKETIDE SYNTHASE EXTENDER MODULES 3-4 ; ligands: NDP ; X-RAY DIFFRACTION 2.57Å

e4hxyB3[B:176-435] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PLM1 ; ligands: ACA,NDP ; X-RAY DIFFRACTION 1.68Å

e4j1sA2[A:163-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase PksJ ; X-RAY DIFFRACTION 3.0Å

e3qp9B2[B:218-495] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TYPE I POLYKETIDE SYNTHASE PIKAII ; X-RAY DIFFRACTION 1.88Å

e4pivB1[B:1877-2113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Fatty acid synthase ; ligands: 2W4,CAC,NDP,SO4 ; X-RAY DIFFRACTION 2.227Å

e4pivA1[A:1509-2113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Fatty acid synthase ; ligands: 2W4,CAC,NDP,SO4 ; X-RAY DIFFRACTION 2.227Å

e4impB3[B:273-529] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYKETIDE SYNTHASE EXTENDER MODULES 3-4 ; ligands: NDP ; X-RAY DIFFRACTION 2.57Å

e4hxyA2[A:176-435] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PLM1 ; ligands: NDP ; X-RAY DIFFRACTION 1.68Å

e4impA2[A:273-529] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYKETIDE SYNTHASE EXTENDER MODULES 3-4 ; ligands: NDP ; X-RAY DIFFRACTION 2.57Å

e4di7A1[A:269-530] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e3slkB1[B:524-740,B:743-751] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase extender module 2 ; ligands: NDP,SO4 ; X-RAY DIFFRACTION 2.9Å

e3slkA1[A:524-740,A:743-751] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase extender module 2 ; ligands: NDP,SO4 ; X-RAY DIFFRACTION 2.9Å

e4l4xA1[A:271-531] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMPHI ; ligands: NDP ; X-RAY DIFFRACTION 2.55Å

e4difB1[B:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH

AMPHB ; ligands: GOL,NDP ; X-RAY DIFFRACTION 1.52Å

e5c37C1[C:1877-2114] Image Pymol Jmol Links: PDB, SCOP, CATH

Fatty acid synthase ; ligands: 4XN,NDP ; X-RAY DIFFRACTION 2.300Å

e5xwvA2[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: 8H6,NDP ; X-RAY DIFFRACTION 1.8Å

e5xwvB1[B:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: 8H6,NDP ; X-RAY DIFFRACTION 1.8Å

e5xwwA1[A:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: 8H6,NAP ; X-RAY DIFFRACTION 1.96Å

e5xwwB1[B:208-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AmphB ; ligands: 8H6,NAP ; X-RAY DIFFRACTION 1.96Å

e6nnaA2[A:1509-2113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Fatty acid synthase,Fatty acid synthase ; ligands: EDO,KUA,NDP ; X-RAY DIFFRACTION 2.260Å

e6nnaB1[B:1877-2113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Fatty acid synthase,Fatty acid synthase ; ligands: EDO,KUA,NDP ; X-RAY DIFFRACTION 2.260Å

e6fn6A2[A:1802-1987,A:2030-2056] Image Pymol Jmol Links: PDB, SCOP, CATH

Fatty acid synthase 1, isoform A ; ligands: EDO ; X-RAY DIFFRACTION 2.7Å

e6fn6B2[B:1802-1989,B:2030-2055] Image Pymol Jmol Links: PDB, SCOP, CATH

Fatty acid synthase 1, isoform A ; X-RAY DIFFRACTION 2.7Å

e5c37A3[A:1874-2113] Image Pymol Jmol Links: PDB, SCOP, CATH

Fatty acid synthase ; ligands: 4XN,NDP ; X-RAY DIFFRACTION 2.300Å

e6w7sA1[A:1657-1914] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EryAI ; ligands: MES ; X-RAY DIFFRACTION 2.249Å

e6wh9G2[G:1657-1910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KR1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.75Å

e6wh9D1[D:1657-1910] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KR1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.75Å

e6wh9A1[A:1657-1909] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KR1 ; ligands: SO4 ; X-RAY DIFFRACTION 2.75Å

e7s6bC1[C:1190-1454] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase ; X-RAY DIFFRACTION 2.35Å

e7s6bD1[D:1191-1456] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase ; X-RAY DIFFRACTION 2.35Å

e7s6cC1[C:1191-1456] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

6-deoxyerythronolide-B synthase EryA2, modules 3 and 4, Lsd14 Polyketide synthase fusion ; ligands: ATR ; ELECTRON MICROSCOPY

e7s6dC1[C:1191-1456] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

6-deoxyerythronolide-B synthase EryA2, modules 3 and 4, Lsd14 Polyketide synthase fusion ; ligands: ATR ; ELECTRON MICROSCOPY

e8i4yA5[A:1437-1696] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI