Tableau information
Concept source: d2vfma_ amino acid (a.a.) range (GLN489)(ILE506)
nSSEs in this Concept: 3
String of secondary struct.elems. (SSEs) defining this concept: EEE
Each SSE's a.a.range: (start resi) (end resi) SSEtype (H=Helix; E=Strand) followed by a numeric SSE ID:
(GLN489) (GLY494) E1
(CYS496) (GLY500) E2
(GLY500) (ILE506) E3
Orientation angles° of SSE-pairs; those in contact shown in bold font
E1
E2 139.4° E2
E3 -155.7° -63.9°
Footnote: Inferred from this concept's usages (listed below) was the angular variance of 1σ = ±9.2° about each orientation angle shown above.
Loci of concept usages (shown as a range of a.a. residue ids) in SCOP(v2.05) domains, along with their brief legend taken from SCOP
d1q8ga_ : (LYS34) (VAL57) [view usage] : d.109.1.2 |Gelsolin-like |Actin depolymerizing proteins |Cofilin-like |Cofilin (actin depolymerizing factor, ADF) |Human (Homo sapiens), non-muscle isoform [TaxId: 9606]
d1h95a_ : (GLU60) (PRO78) [view usage] : b.40.4.5 |OB-fold |Nucleic acid-binding proteins |Cold shock DNA-binding domain-like |Y-box protein 1 cold shock domain (YB1-CSD) |Human (Homo sapiens) [TaxId: 9606]
d3d7qb_ : (ILE58) (THR75) [view usage] : d.326.1.0 |XisI-like |XisI-like |automated matches |automated matches |Nostoc punctiforme [TaxId: 272131]
d3wwgc2 : (GLY350) (HIS369) [view usage] : b.80.1.0 |Single-stranded right-handed beta-helix |Pectin lyase-like |automated matches |automated matches |Aspergillus niger [TaxId: 5061]
d2z8wc_ : (TYR87) (ALA114) [view usage] : b.1.1.1 |Immunoglobulin-like beta-sandwich |Immunoglobulin |V set domains (antibody variable domain-like) |automated matches |Spotted wobbegong (Orectolobus maculatus) [TaxId: 168098]
d2q4qa_ : (THR2) (PRO30) [view usage] : c.103.1.1 |MTH938-like |MTH938-like |MTH938-like |Hypothetical protein PTD015 (C11orf67) |Human (Homo sapiens) [TaxId: 9606]
d1erza_ : (ILE127) (LEU154) [view usage] : d.160.1.2 |Carbon-nitrogen hydrolase |Carbon-nitrogen hydrolase |Carbamilase |N-carbamoyl-D-aminoacid amidohydrolase |Agrobacterium sp. [TaxId: 361]
d4q7ga_ : (GLN295) (GLU322) [view usage] : f.6.1.1 |Leukocidin-like |Leukocidin-like |Leukocidin (pore-forming toxin) |automated matches |Staphylococcus aureus [TaxId: 282459]
d2bm5a_ : (MET1) (ASP16) [view usage] : b.80.8.1 |Single-stranded right-handed beta-helix |Pentapeptide repeat-like |Pentapeptide repeats |automated matches |Mycobacterium tuberculosis [TaxId: 83332]
d3obfa_ : (GLU147) (HIS169) [view usage] : d.110.2.0 |Profilin-like |GAF domain-like |automated matches |automated matches |Arthrobacter aurescens [TaxId: 290340]
d4k9ya_ : (ARG421) (SER443) [view usage] : d.144.1.7 |Protein kinase-like (PK-like) |Protein kinase-like (PK-like) |Protein kinases, catalytic subunit |Focal adhesion kinase 1 (fak) |Human (Homo sapiens) [TaxId: 9606]
d2vfqa_ : (GLN489) (ILE506) [view usage] : b.80.1.6 |Single-stranded right-handed beta-helix |Pectin lyase-like |P22 tailspike protein |P22 tailspike protein |Salmonella phage P22 [TaxId: 10754]
d1e9ya1 : (GLY171) (ASP188) [view usage] : b.85.3.1 |beta-clip |Urease, beta-subunit |Urease, beta-subunit |Urease, beta-subunit |Helicobacter pylori [TaxId: 210]
d1go3e2 : (LYS52) (LEU75) [view usage] : d.230.1.1 |Dodecin subunit-like |N-terminal, heterodimerisation domain of RBP7 (RpoE) |N-terminal, heterodimerisation domain of RBP7 (RpoE) |N-terminal, heterodimerisation domain of RBP7 (RpoE) |Methanococcus jannaschii [TaxId: 2190]
d2k4wa_ : (VAL96) (ARG113) [view usage] : b.1.8.1 |Immunoglobulin-like beta-sandwich |Cu,Zn superoxide dismutase-like |Cu,Zn superoxide dismutase-like |automated matches |Salmonella enterica [TaxId: 119912]
d1b8pa2 : (PRO286) (ALA304) [view usage] : d.162.1.1 |LDH C-terminal domain-like |LDH C-terminal domain-like |Lactate & malate dehydrogenases, C-terminal domain |Malate dehydrogenase |Aquaspirillum arcticum [TaxId: 87645]
d2f3la1 : (ARG91) (LEU106) [view usage] : b.80.8.1 |Single-stranded right-handed beta-helix |Pentapeptide repeat-like |Pentapeptide repeats |Lumenal RFR-domain protein |Cyanothece sp. atcc 51142 [TaxId: 43989]
d4nn0c_ : (ALA102) (GLN133) [view usage] : b.22.1.0 |TNF-like |TNF-like |automated matches |automated matches |Human (Homo sapiens) [TaxId: 9606]
d1e3ha5 : (VAL181) (THR206) [view usage] : d.101.1.1 |Ribonuclease PH domain 2-like |Ribonuclease PH domain 2-like |Ribonuclease PH domain 2-like |Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5 |Streptomyces antibioticus [TaxId: 1890]
d1khia2 : (LEU155) (VAL170) [view usage] : b.40.4.5 |OB-fold |Nucleic acid-binding proteins |Cold shock DNA-binding domain-like |C-terminal domain of eIF5a homologue (Hex1) |Fungus (Neurospora crassa) [TaxId: 5141]
d2gska_ : (PRO412) (ASP442) [view usage] : f.4.3.3 |Transmembrane beta-barrels |Porins |Ligand-gated protein channel |Outer membrane cobalamin transporter BtuB |Escherichia coli [TaxId: 562]
d1jdea3 : (PRO86) (ASN108) [view usage] : d.142.1.5 |ATP-grasp |Glutathione synthetase ATP-binding domain-like |Pyruvate phosphate dikinase, N-terminal domain |Pyruvate phosphate dikinase, N-terminal domain |Clostridium symbiosum [TaxId: 1512]
d3wx5a_ : (THR64) (HIS84) [view usage] : b.29.1.11 |Concanavalin A-like lectins/glucanases |Concanavalin A-like lectins/glucanases |Xylanase/endoglucanase 11/12 |automated matches |Uncultured bacterium [TaxId: 77133]
d1ghqc2 : (GLU74) (PRO88) [view usage] : g.18.1.1 |Complement control module/SCR domain |Complement control module/SCR domain |Complement control module/SCR domain |Complement receptor 2, cr2 |Human (Homo sapiens) [TaxId: 9606]
d4e4dx_ : (LEU237) (GLY265) [view usage] : b.22.1.1 |TNF-like |TNF-like |TNF-like |TRANCE/RANKL cytokine |Mouse (Mus musculus) [TaxId: 10090]
d1iska_ : (LYS92) (ALA125) [view usage] : d.17.4.3 |Cystatin-like |NTF2-like |Ketosteroid isomerase-like |Delta-5-3-ketosteroid isomerase, steroid delta-isomerase, KSI |Comamonas testosteroni, also known as Pseudomonas testosteroni [TaxId: 285]
d2d10a3 : (PHE44) (GLU87) [view usage] : d.15.1.4 |beta-Grasp (ubiquitin-like) |Ubiquitin-like |First domain of FERM |Radixin |Mouse (Mus musculus) [TaxId: 10090]
d1af6a_ : (GLN108) (PRO125) [view usage] : f.4.3.2 |Transmembrane beta-barrels |Porins |Maltoporin-like |Maltoporin (also LamB protein) |Escherichia coli [TaxId: 562]
d2jg3a1 : (GLY214) (HIS237) [view usage] : c.66.1.27 |S-adenosyl-L-methionine-dependent methyltransferases |S-adenosyl-L-methionine-dependent methyltransferases |DNA methylase TaqI, N-terminal domain |automated matches |Thermus aquaticus [TaxId: 271]
d2imlb_ : (ALA99) (GLU123) [view usage] : b.45.1.4 |Split barrel-like |FMN-binding split barrel |MTH863-like |Hypothetical protein AF1834 |Archaeoglobus fulgidus [TaxId: 2234]
d4g3yc_ : (PRO12) (ALA38) [view usage] : b.22.1.1 |TNF-like |TNF-like |TNF-like |Tumor necrosis factor (TNF) |Human (Homo sapiens) [TaxId: 9606]
d2xzmq_ : (LEU122) (PRO143) [view usage] : i.1.1.3 |Ribosome and ribosomal fragments |Ribosome and ribosomal fragments |Small subunit |Eukaryotic, cytoplasmic (40S subunit) |Tetrahymena thermophila [TaxId: 5911]
d4hnak_ : (ARG190) (ASN216) [view usage] : c.37.1.9 |P-loop containing nucleoside triphosphate hydrolases |P-loop containing nucleoside triphosphate hydrolases |Motor proteins |automated matches |Human (Homo sapiens) [TaxId: 9606]
d1h8ma_ : (MET1) (SER26) [view usage] : d.110.4.1 |Profilin-like |SNARE-like |Synatpobrevin N-terminal domain |Synaptobrevin homolog 1 ykt6 |Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
d2bm5b_ : (GLN2) (ASP16) [view usage] : b.80.8.1 |Single-stranded right-handed beta-helix |Pentapeptide repeat-like |Pentapeptide repeats |automated matches |Mycobacterium tuberculosis [TaxId: 83332]
d2abqa1 : (GLU84) (LYS110) [view usage] : c.72.1.1 |Ribokinase-like |Ribokinase-like |Ribokinase-like |Fructose 1-phosphate kinase FruB |Bacillus halodurans [TaxId: 86665]
d3bw6a_ : (MET-1) (SER26) [view usage] : d.110.4.1 |Profilin-like |SNARE-like |Synatpobrevin N-terminal domain |automated matches |Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
d1dika3 : (PRO86) (ASN108) [view usage] : d.142.1.5 |ATP-grasp |Glutathione synthetase ATP-binding domain-like |Pyruvate phosphate dikinase, N-terminal domain |Pyruvate phosphate dikinase, N-terminal domain |Clostridium symbiosum [TaxId: 1512]
d1dppa_ : (LYS489) (GLU507) [view usage] : c.94.1.1 |Periplasmic binding protein-like II |Periplasmic binding protein-like II |Phosphate binding protein-like |Dipeptide-binding protein |Escherichia coli [TaxId: 562]
d2ix1a3 : (ILE60) (GLU80) [view usage] : b.40.4.5 |OB-fold |Nucleic acid-binding proteins |Cold shock DNA-binding domain-like |Exoribonuclease 2, RNB |Escherichia coli [TaxId: 562]
d1g38a1 : (GLY214) (HIS237) [view usage] : c.66.1.27 |S-adenosyl-L-methionine-dependent methyltransferases |S-adenosyl-L-methionine-dependent methyltransferases |DNA methylase TaqI, N-terminal domain |DNA methylase TaqI, N-terminal domain |Thermus aquaticus [TaxId: 271]
d1smoa_ : (SER51) (PRO73) [view usage] : b.1.1.1 |Immunoglobulin-like beta-sandwich |Immunoglobulin |V set domains (antibody variable domain-like) |TREM-1 (triggering receptor expressed on myeloid cells 1) |Human (Homo sapiens) [TaxId: 9606]
d1dbga_ : (LEU120) (CYS137) [view usage] : b.80.1.4 |Single-stranded right-handed beta-helix |Pectin lyase-like |Chondroitinase B |Chondroitinase B |Pedobacter heparinus [TaxId: 984]
d5tswa_ : (PRO12) (ALA38) [view usage] : b.22.1.1 |TNF-like |TNF-like |TNF-like |Tumor necrosis factor (TNF) |Human (Homo sapiens) [TaxId: 9606]
d2fyha_ : (ALA159) (LEU182) [view usage] : d.61.1.0 |LigT-like |LigT-like |automated matches |automated matches |Pyrococcus furiosus [TaxId: 186497]
d2ww4a1 : (LEU13) (ASP36) [view usage] : d.14.1.5 |Ribosomal protein S5 domain 2-like |Ribosomal protein S5 domain 2-like |GHMP Kinase, N-terminal domain |4-(cytidine 5'-diphospho)-2C-methyl-D-erythritol kinase IspE |Escherichia coli [TaxId: 562]
d1iuha_ : (GLY156) (LEU179) [view usage] : d.61.1.2 |LigT-like |LigT-like |2'-5' RNA ligase LigT |2'-5' RNA ligase LigT |Thermus thermophilus [TaxId: 274]
d2aq2b1 : (VAL82) (HIS116) [view usage] : b.40.2.2 |OB-fold |Bacterial enterotoxins |Superantigen toxins, N-terminal domain |Staphylococcal enterotoxin C3, SEC3 |Staphylococcus aureus [TaxId: 1280]
d2h28b_ : (PRO28) (GLY52) [view usage] : d.110.8.1 |Profilin-like |YeeU-like |YagB/YeeU/YfjZ-like |Hypothetical protein YeeU |Escherichia coli [TaxId: 562]
d1vdxa_ : (ALA159) (GLU181) [view usage] : d.61.1.0 |LigT-like |LigT-like |automated matches |automated matches |Pyrococcus horikoshii [TaxId: 53953]
d1jq4a_ : (CYS82) (TYR96) [view usage] : d.15.4.2 |beta-Grasp (ubiquitin-like) |2Fe-2S ferredoxin-like |2Fe-2S ferredoxin domains from multidomain proteins |Methane monooxygenase reductase N-terminal domain |Methylococcus capsulatus [TaxId: 414]
d2vfma_ : (GLN489) (ILE506) [view usage] : b.80.1.6 |Single-stranded right-handed beta-helix |Pectin lyase-like |P22 tailspike protein |P22 tailspike protein |Salmonella phage P22 [TaxId: 10754]
d2vfma_ : (THR515) (GLY528) [view usage] : b.80.1.6 |Single-stranded right-handed beta-helix |Pectin lyase-like |P22 tailspike protein |P22 tailspike protein |Salmonella phage P22 [TaxId: 10754]
d1nyqa4 : (GLY469) (PHE493) [view usage] : d.104.1.1 |Class II aaRS and biotin synthetases |Class II aaRS and biotin synthetases |Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain |Threonyl-tRNA synthetase (ThrRS) |Staphylococcus aureus [TaxId: 1280]
d2btvc2 : (MET182) (VAL212) [view usage] : b.19.1.1 |Viral protein domain |Viral protein domain |Top domain of virus capsid protein |BTV vp7, central (top) domain |Bluetongue virus [TaxId: 40051]
d1o5ob_ : (LEU48) (LEU78) [view usage] : c.61.1.1 |PRTase-like |PRTase-like |Phosphoribosyltransferases (PRTases) |Uracil PRTase, Upp |Thermotoga maritima [TaxId: 2336]
d1o5ob_ : (SER96) (PRO119) [view usage] : c.61.1.1 |PRTase-like |PRTase-like |Phosphoribosyltransferases (PRTases) |Uracil PRTase, Upp |Thermotoga maritima [TaxId: 2336]
List of distinct SCOP folds where this concept is used (in one or more of its domains):
b.80, b.19, c.94, i.1, b.29, c.66, c.72, f.4, d.144, b.40, c.37, d.104, d.14, b.85, d.160, b.1, b.45, d.110, d.17, c.61,
d.142, b.22, d.162, d.109, d.15, g.18, d.101, f.6, c.103, d.326, d.230, d.61