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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

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

X: Alpha-beta plaits
H: RNA-binding domain, RBD
T: RNA-binding domain, RBD
F: RRM_1

PF00076 CL0221

Representatives:

e5mduA1[A:406-476] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Rpb7-binding protein seb1 ; ligands: CL,GOL,NA ; X-RAY DIFFRACTION 1.02Å

e1l3kA1[A:8-91] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN A1 ; X-RAY DIFFRACTION 1.1Å

e1l3kA2[A:103-181] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN A1 ; X-RAY DIFFRACTION 1.1Å

e3u1lA2[A:131-227] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Pre-mRNA-splicing factor CWC2 ; X-RAY DIFFRACTION 1.64Å

e1fxlA1[A:37-118] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PARANEOPLASTIC ENCEPHALOMYELITIS ANTIGEN HUD ; X-RAY DIFFRACTION 1.8Å

e1fxlA2[A:119-203] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PARANEOPLASTIC ENCEPHALOMYELITIS ANTIGEN HUD ; X-RAY DIFFRACTION 1.8Å

e1nu4A1[A:7-97] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

U1A RNA binding domain ; ligands: MG,MLA ; X-RAY DIFFRACTION 1.8Å

e1zh5A2[A:105-189] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

LUPUS LA PROTEIN ; ligands: SO4 ; X-RAY DIFFRACTION 1.85Å

e1rk8A1[A:66-153] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CG8781-PA protein ; ligands: CA ; X-RAY DIFFRACTION 1.90Å

e1u1oA1[A:8-91] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN A1 ; X-RAY DIFFRACTION 2.0Å

e1u1oA2[A:92-190] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN A1 ; X-RAY DIFFRACTION 2.0Å

e1h2vZ1[Z:33-125] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

20 KDA NUCLEAR CAP BINDING PROTEIN ; X-RAY DIFFRACTION 2.000Å

e1jmtA1[A:43-146] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SPLICING FACTOR U2AF 35 KDA SUBUNIT ; ligands: HEZ ; X-RAY DIFFRACTION 2.20Å

e1h2uX1[X:4-152] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

20 KDA NUCLEAR CAP BINDING PROTEIN ; ligands: 7MG,GDP ; X-RAY DIFFRACTION 2.300Å

e5ca5A1[A:106-186] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NONO-1 ; X-RAY DIFFRACTION 2.40Å

e5ca5A2[A:187-283] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NONO-1 ; ligands: EDO ; X-RAY DIFFRACTION 2.40Å

e2f9dA1[A:12-125] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Pre-mRNA branch site protein p14 ; X-RAY DIFFRACTION 2.50Å

e1cvjA1[A:11-90] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYADENYLATE BINDING PROTEIN 1 ; ligands: A ; X-RAY DIFFRACTION 2.6Å

e1cvjA2[A:91-179] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

POLYADENYLATE BINDING PROTEIN 1 ; X-RAY DIFFRACTION 2.6Å

e2ghpA1[A:116-196] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

U4/U6 snRNA-associated splicing factor PRP24 ; X-RAY DIFFRACTION 2.70Å

e2ghpA2[A:41-115] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

U4/U6 snRNA-associated splicing factor PRP24 ; X-RAY DIFFRACTION 2.70Å

e2ghpA3[A:206-291] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

U4/U6 snRNA-associated splicing factor PRP24 ; X-RAY DIFFRACTION 2.70Å

e3begB1[B:121-207] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Splicing factor, arginine/serine-rich 1 ; X-RAY DIFFRACTION 2.9Å

e4wijB1[B:292-368] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Splicing factor, proline- and glutamine-rich ; X-RAY DIFFRACTION 3.480Å

e1fjcA1[A:1-96] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NUCLEOLIN RBD2 ; SOLUTION NMR

e1fjeB2[B:1-91] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NUCLEOLIN RBD12 ; SOLUTION NMR

e1no8A1[A:105-182] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ALY ; SOLUTION NMR

e1o0pA1[A:372-475] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Splicing factor U2AF 65 kDa subunit ; SOLUTION NMR

e1p1tA1[A:8-111] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cleavage stimulation factor, 64 kDa subunit ; SOLUTION NMR

e1u2fA1[A:1-90] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (SPLICING FACTOR U2AF 65 KD SUBUNIT) ; SOLUTION NMR

e1u6fA1[A:41-120] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA-binding protein UBP1 ; SOLUTION NMR

e1welA1[A:412-523] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein 12 ; SOLUTION NMR

e1wexA1[A:1-104] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

HYPOTHETICAL PROTEIN (RIKEN CDNA 2810036L13) ; SOLUTION NMR

e1wf0A1[A:1-88] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

TAR DNA-binding protein-43 ; SOLUTION NMR

e1wf2A1[A:1-98] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Heterogeneous nuclear ribonucleoproteins C1/C2 ; SOLUTION NMR

e1wg1A1[A:90-177] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

KIAA1579 protein ; SOLUTION NMR

e1wg5A1[A:1-104] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Heterogeneous nuclear ribonucleoprotein H ; SOLUTION NMR

e1whwA1[A:30-128] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein RIKEN CDNA 1200009A02 ; SOLUTION NMR

e1whxA1[A:212-322] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein RIKEN CDNA 1200009A02 ; SOLUTION NMR

e1whyA1[A:74-170] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein RIKEN cDNA 1810017N16 ; SOLUTION NMR

e1wi8A1[A:81-184] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Eukaryotic translation initiation factor 4B ; SOLUTION NMR

e1x4aA1[A:9-103] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor) variant ; SOLUTION NMR

e1x4eA1[A:8-79] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA binding motif, single-stranded interacting protein 2 ; SOLUTION NMR

e1x4fA1[A:8-106] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Matrin 3 ; SOLUTION NMR

e1x4gA1[A:8-103] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Nucleolysin TIAR ; SOLUTION NMR

e1x4hA1[A:8-105] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein 28 ; SOLUTION NMR

e1x5oA1[A:8-108] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA binding motif, single-stranded interacting protein 1 ; SOLUTION NMR

e2adcA2[A:444-531] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polypyrimidine tract-binding protein 1 ; SOLUTION NMR

e2b0gA1[A:1-83] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

U1 small nuclear ribonucleoprotein A ; SOLUTION NMR

e2bz2A1[A:35-113] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NEGATIVE ELONGATION FACTOR E ; SOLUTION NMR

e2cpdA1[A:223-308] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

APOBEC-1 stimulating protein ; SOLUTION NMR

e2cpeA1[A:353-453] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein EWS ; SOLUTION NMR

e2cpfA1[A:362-446] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA binding motif protein 19 ; SOLUTION NMR

e2cphA1[A:454-547] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA binding motif protein 19 ; SOLUTION NMR

e2cpiA1[A:101-189] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

CCR4-NOT transcription complex subunit 4 ; SOLUTION NMR

e2cpjA1[A:65-150] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Non-POU domain-containing octamer-binding protein ; SOLUTION NMR

e2cpxA1[A:291-392] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Hypothetical protein FLJ11016 ; SOLUTION NMR

e2cpyA1[A:536-638] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein 12 ; SOLUTION NMR

e2cpzA1[A:383-484] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

CUG triplet repeat RNA-binding protein 1 ; SOLUTION NMR

e2cq0A1[A:231-320] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Eukaryotic translation initiation factor 3 subunit 4 ; SOLUTION NMR

e2cq2A1[A:25-125] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein LOC91801 ; SOLUTION NMR

e2cq3A1[A:110-202] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein 9 ; SOLUTION NMR

e2cq4A1[A:132-232] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA binding motif protein 23 ; SOLUTION NMR

e2cqbA1[A:1-89] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Peptidyl-prolyl cis-trans isomerase E ; SOLUTION NMR

e2cqcA1[A:109-191] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Arginine/serine-rich splicing factor 10 ; SOLUTION NMR

e2cqdA1[A:1-103] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding region containing protein 1 ; SOLUTION NMR

e2cqgA1[A:96-185] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

TAR DNA-binding protein-43 ; SOLUTION NMR

e2cqhA1[A:2-81] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

IGF-II mRNA-binding protein 2 isoform a ; SOLUTION NMR

e2cqiA1[A:1-90] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

NUCLEOLYSIN TIAR ; SOLUTION NMR

e2cqpA1[A:917-1002] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

RNA-binding protein 12 ; SOLUTION NMR

e2dgxA1[A:563-635] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

KIAA0430 protein ; SOLUTION NMR

e2disA1[A:8-103] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

unnamed protein product ; SOLUTION NMR

e2ditA1[A:8-106] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

HIV TAT specific factor 1 variant ; SOLUTION NMR

e2hvzA1[A:1-74] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Splicing factor, arginine/serine-rich 7 ; SOLUTION NMR

e2m88A1[A:32-102] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN NRD1 ; SOLUTION NMR

e2mstA1[A:110-184] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (MUSASHI1) ; SOLUTION NMR

e2u2fA1[A:1-85] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (SPLICING FACTOR U2AF 65 KD SUBUNIT) ; SOLUTION NMR

e5gvqA1[A:1-105] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Splicing factor 3B subunit 4 ; SOLUTION NMR

e5o1tA1[A:339-407] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Protein NRD1 ; SOLUTION NMR

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: LuxS, MPP, ThrRS/AlaRS common domain

looks like an elaborated ferredoxin

X: ClpS-like

contains a HTH motif

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