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: N-terminal domain of TAP-binding protein-related

X: P22 coat protein insertion domain

X: Catalytic domain of hepatitis C virus NS2-3 protease

X: N-terminal domain of minor coat protein pIII

X: uncharacterized protein RUMGNA_01417

X: Ribosomal protein L21p

X: Ribosomal protein L25-like

X: Uncharacterized protein from gene locus rrnAC0354

X: Replication foci-targeting sequence N-terminal domain

X: Protein CLP1 C-terminal domain

X: Glycoside hydrolase family 127 C-terminal domain

X: EV matrix protein

X: LigT-like

X: Urease metallochperone UreE-N

X: Target recognition domain of zoocin A

X: Polymyxin B resistance protein

X: Cuben fold of PcncAAAD

X: OB-fold

X: GroES-like

X: Uncharacterized protein Dsy0195

X: SH3

H: SH3

T: SH3

F: PAZ

F: TTD

F: SHD1

F: ToxN_toxin

F: Ago_N_1

F: FeThRed_A

F: KOW,40S_S4_C

F: MBT,E_Pc_C

F: SH3_2

F: DUF1653

F: GW

F: NMD_SH3

F: MS_channel_2nd

F: N_NLPC_P60,SH3_6

F: PWWP

F: VEG

F: SH3_10

F: MLVIN_C

F: Ribosomal_L19

F: DHFR_2

F: SH3_13

F: Ribosomal_L26

F: 40S_S4_C

F: KN17_SH3

F: Clr2

F: Pif1_2B_dom

F: PTM_DIR17_Tudor

F: DUF5604

F: SMN_YG-box

F: LSM

F: SH3_9

F: SH3_14

F: Myosin_N

F: XRN1_D2_D3

F: SH3_11

F: FLgD_tudor

F: SM-ATX

F: DUF4444

F: TraI_2B

F: LSM14

F: Cul7

F: VGCC_beta4Aa_N

F: IF5A-like_N

F: DUF1541

F: PemK_toxin

Representatives:

e1m1fA1[A:1-110] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Kid toxin protein ; X-RAY DIFFRACTION 1.4Å

e2c06B1[B:1-110] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KID TOXIN PROTEIN ; SOLUTION NMR

e1m1fB1[B:1-110] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Kid toxin protein ; ligands: PO4 ; X-RAY DIFFRACTION 1.4Å

e2c06A1[A:1-110] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KID TOXIN PROTEIN ; SOLUTION NMR

e1ub4B1[B:202-311] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MazF protein ; X-RAY DIFFRACTION 1.70Å

e3nfcA1[A:5-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e3nfcB1[B:5-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e3nfcC1[C:5-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e3nfcD1[D:5-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e3nfcE1[E:5-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e3nfcF1[F:4-111] Image Pymol Jmol Links: PDB, SCOP, CATH

PEMK-LIKE PROTEIN 1 ; X-RAY DIFFRACTION 2.0Å

e4hkeA1[A:1-120] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Addiction module toxin component PemK ; ligands: SO4 ; X-RAY DIFFRACTION 1.87Å

e4hkeB1[B:1-120] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Addiction module toxin component PemK ; ligands: SO4 ; X-RAY DIFFRACTION 1.87Å

e4mdxA1[A:0-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; ligands: IOD,NA ; X-RAY DIFFRACTION 1.500Å

e4mdxB1[B:0-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; ligands: IOD ; X-RAY DIFFRACTION 1.500Å

e4me7A1[A:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; X-RAY DIFFRACTION 2.918Å

e4me7B1[B:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; X-RAY DIFFRACTION 2.918Å

e4me7C1[C:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; X-RAY DIFFRACTION 2.918Å

e4me7D1[D:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mRNA interferase EndoA ; X-RAY DIFFRACTION 2.918Å

e2mf2A1[A:1-132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; SOLUTION NMR

e2mf2B1[B:1-132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; SOLUTION NMR

e4mzpA1[A:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpB1[B:-1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpF1[F:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpH1[H:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mztA1[A:0-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.3Å

e4mzmA1[A:0-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; X-RAY DIFFRACTION 2.1Å

e4mzmB1[B:0-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; X-RAY DIFFRACTION 2.1Å

e4mzmC1[C:0-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; X-RAY DIFFRACTION 2.1Å

e4mzmD1[D:0-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MRNA INTERFERASE MAZF ; X-RAY DIFFRACTION 2.1Å

e4mzpC1[C:1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpD1[D:1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpE1[E:1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mzpG1[G:1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.7Å

e4mztB1[B:1-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MAZF MRNA INTERFERASE ; X-RAY DIFFRACTION 2.3Å

e4of1A1[A:1-115] Image Pymol Jmol Links: PDB, SCOP, CATH

mRNA interferase MazF ; X-RAY DIFFRACTION 2.45Å

e4of1B1[B:1-115] Image Pymol Jmol Links: PDB, SCOP, CATH

mRNA interferase MazF ; X-RAY DIFFRACTION 2.45Å

e5ck9A1[A:1-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; ligands: 1PE ; X-RAY DIFFRACTION 1.898Å

e5ck9B1[B:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; ligands: 1PE ; X-RAY DIFFRACTION 1.898Å

e5ckbA1[A:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.799Å

e5ckbB1[B:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.799Å

e5ckdA1[A:3-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 1.7Å

e5ckdB1[B:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; ligands: NA ; X-RAY DIFFRACTION 1.7Å

e5ckeA1[A:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.3Å

e5ckeB1[B:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; ligands: MRD,SO4 ; X-RAY DIFFRACTION 2.3Å

e5ckfA1[A:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.8Å

e5ckfB1[B:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.8Å

e5ckhA1[A:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.449Å

e5ckhB1[B:2-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.449Å

e5co7A1[A:2-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5co7B1[B:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5co7C1[C:2-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5co7D1[D:2-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5co7E1[E:2-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5co7F1[F:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 3.49Å

e5cqxA1[A:1-119] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 1.63Å

e5cqxB1[B:3-119] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 1.63Å

e5cqyA1[A:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.48Å

e5cqyB1[B:2-113] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.48Å

e5cr2A1[A:2-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.90Å

e5cr2B1[B:4-111] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.90Å

e5cr2C1[C:3-112] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF ; X-RAY DIFFRACTION 2.90Å

e5ccaA1[A:1-98] Image Pymol Jmol Links: PDB, SCOP, CATH

Endoribonuclease MazF3 ; X-RAY DIFFRACTION 3.00Å

e5dloA1[A:0-114] Image Pymol Jmol Links: PDB, SCOP, CATH

Endoribonuclease MazF ; ligands: CL ; X-RAY DIFFRACTION 1.40Å

e5ccaB1[B:2-96] Image Pymol Jmol Links: PDB, SCOP, CATH

Endoribonuclease MazF3 ; X-RAY DIFFRACTION 3.00Å

e5uctA1[A:2-100] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF3 ; ligands: SO4 ; X-RAY DIFFRACTION 2.7Å

e5uctB1[B:1-100] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF3 ; ligands: SO4 ; X-RAY DIFFRACTION 2.7Å

e5wygA1[A:2-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Probable endoribonuclease MazF7 ; X-RAY DIFFRACTION 2.35Å

e5wygC1[C:1-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Probable endoribonuclease MazF7 ; X-RAY DIFFRACTION 2.35Å

e5xe3C1[C:3-105] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF4 ; X-RAY DIFFRACTION 2.30Å

e5xe3D1[D:1-105] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF4 ; X-RAY DIFFRACTION 2.30Å

e5xe3A1[A:3-105] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF4 ; X-RAY DIFFRACTION 2.30Å

e5xe3B1[B:1-105] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF4 ; X-RAY DIFFRACTION 2.30Å

e6a6xA1[A:-3-115] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Probable endoribonuclease MazF7 ; ligands: SO4 ; X-RAY DIFFRACTION 2.7Å

e6a6xB1[B:0-114] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Probable endoribonuclease MazF7 ; X-RAY DIFFRACTION 2.7Å

e6kysB1[B:-3-118] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF9 ; X-RAY DIFFRACTION 2.2Å

e6kysA1[A:1-118] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endoribonuclease MazF9 ; X-RAY DIFFRACTION 2.2Å

e6kytA1[A:2-118] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI