3RGMA

Crystal structure of spin-labeled btub t156r1
Total Genus 156
100200300400500020406080100120140160
Genus TraceResidueGenus

The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
156
sequence length
588
structure length
548
Chain Sequence
TLVVTANRFEQPRSTVLAPTTVVTRQDIDRWQSTSVNDVLRRLPGVDITQNGGSGQLSSIFIRGTNASHVLVLIDGVRLNLAGVSGSADLSQFPIALVQRVEYIRGPRSAVYGSDAIGGVVNIITTRDEPGTEISAGWGSNSYQNYDVSCQQQLGDKTRVTLLGDYAHTHGGFLSKTLYGALEHNFTDAWSGFVRGYGYDNRTNDTRKLYSQSWDAGLRYNGELIKSQLITSYSHSKDYNYATLDEMKQYTVQWANNVIVGHGSIGAGVDWQKQTTTPGTGYVEDGYDQRNTGIYLTGLQQVGDFTFEGAARSDDNSQFGRHGTWQTSAGWEFIEGYRFIASYGTSYKAPNLGQLYGFYGNPNLDPEKSKQWEGAFEGLTAGVNWRISGYRNDVSDLIDYDDHTLKYYNEGKARIKGVEATANFDTGPLTHTVSYDYVDARNAITDTPLLRRAKQQVKYQLDWQLYDFDWGITYQYLGTRYDKDYSSYPYQTVKMGGVSLWDLAVAYPVTSHLTVRGKIANLFDKDYETVYGYQTAGREYTLSGSYTF

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

molecule tags Transport protein
source organism Escherichia coli
publication title Molecular Origin of Electron Paramagnetic Resonance Line Shapes on β-Barrel Membrane Proteins: The Local Solvation Environment Modulates Spin-Label Configuration
pubmed doi rcsb
molecule keywords Vitamin B12 transporter BtuB
total genus 156
structure length 548
sequence length 588
ec nomenclature
pdb deposition date 2011-04-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00593 TonB_dep_Rec TonB dependent receptor
A PF07715 Plug TonB-dependent Receptor Plug Domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.170.20 Mainly Beta Beta Barrel Maltoporin; Chain A TonB-dependent receptor, beta-barrel domain 3rgmA02
2.170.130.10 Mainly Beta Beta Complex Ferric Hydroxamate Uptake Protein; Chain A, domain 1 TonB-dependent receptor, plug domain 3rgmA01
2W76A 1FEPA 1BY5A 1BY3A 2GSKA 1KMOA 3DDRA 2W16A 1QKCA 2YSUA 1NQFA 3M8BA 1FCPA 4B7OA 1QFGA 1PO3A 1XKHA 2W77A 4AIPA 2FCPA 2GUFA 4RDTA 4RDRA 4CU4A 3V89A 3RGNA 1PNZA 2W6UA 2GRXA 3QLBA 5FOKA 3EFMA 3FHHA 3CSNA 4EPAA 1NQGA 3CSLA 3M8DA 1FI1A 1QJQA 1NQEA 1UJWA 2W78A 2IAHA 2W75A 2HDIA 1KMPA 3V8XA 1QFFA 1NQHA 2HDFA 2O5PA 3RGMA 1PO0A 2W6TA 4AIQA 1XKWA
chains in the Genus database with same CATH superfamily
2W76A 1MPOA 4RDRA 1FEPA 1BY5A 1BY3A 2GSKA 1KMOA 3DDRA 2W16A 1QKCA 1MPNA 2YSUA 1NQFA 3M8BA 1FCPA 4B7OA 1QFGA 1PO3A 1XKHA 2W77A 1OH2P 2FCPA 2GUFA 1MPQA 4AIPA 1A0SP 4CU4A 1JBIA 3V89A 3RGNA 1AF6A 1PNZA 2W6UA 1OH2Q 2GRXA 3QLBA 5FOKA 1A0TP 3EFMA 3FHHA 3CSNA 4EPAA 1NQGA 3CSLA 1MALA 3M8DA 1FI1A 1MPRA 4RDTA 1QJQA 1NQEA 1UJWA 2MPRA 2W78A 2IAHA 2W75A 2HDIA 1KMPA 3V8XA 1QFFA 1NQHA 2HDFA 2O5PA 1MPMA 3RGMA 1PO0A 2W6TA 4AIQA 1XKWA
chains in the Genus database with same CATH topology
2W76A 1FEPA 1BY5A 1BY3A 2GSKA 1KMOA 3DDRA 2W16A 1QKCA 2YSUA 1NQFA 3M8BA 1FCPA 4B7OA 1QFGA 1PO3A 1XKHA 2W77A 4AIPA 2FCPA 2GUFA 4RDTA 4RDRA 4CU4A 3V89A 3RGNA 1PNZA 2W6UA 2GRXA 3QLBA 5FOKA 3EFMA 3FHHA 3CSNA 4EPAA 1NQGA 3CSLA 3M8DA 1FI1A 1QJQA 1NQEA 1UJWA 2W78A 2IAHA 2W75A 2HDIA 1KMPA 3V8XA 1QFFA 1NQHA 2HDFA 2O5PA 3RGMA 1PO0A 2W6TA 4AIQA 1XKWA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2W76 A;  1FEP A;  1BY5 A;  1BY3 A;  2GSK A;  1KMO A;  3DDR A;  2W16 A;  1QKC A;  2YSU A;  1NQF A;  3M8B A;  1FCP A;  4B7O A;  1QFG A;  1PO3 A;  1XKH A;  2W77 A;  4AIP A;  2FCP A;  2GUF A;  4RDT A;  4RDR A;  4CU4 A;  3V89 A;  3RGN A;  1PNZ A;  2W6U A;  2GRX A;  3QLB A;  5FOK A;  3EFM A;  3FHH A;  3CSN A;  4EPA A;  1NQG A;  3CSL A;  3M8D A;  1FI1 A;  1QJQ A;  1NQE A;  1UJW A;  2W78 A;  2IAH A;  2W75 A;  2HDI A;  1KMP A;  3V8X A;  1QFF A;  1NQH A;  2HDF A;  2O5P A;  3RGM A;  1PO0 A;  2W6T A;  4AIQ A;  1XKW A; 
#chains in the Genus database with same CATH topology
 2W76 A;  1MPO A;  4RDR A;  1FEP A;  1BY5 A;  1BY3 A;  2GSK A;  1KMO A;  3DDR A;  2W16 A;  1QKC A;  1MPN A;  2YSU A;  1NQF A;  3M8B A;  1FCP A;  4B7O A;  1QFG A;  1PO3 A;  1XKH A;  2W77 A;  1OH2 P;  2FCP A;  2GUF A;  1MPQ A;  4AIP A;  1A0S P;  4CU4 A;  1JBI A;  3V89 A;  3RGN A;  1AF6 A;  1PNZ A;  2W6U A;  1OH2 Q;  2GRX A;  3QLB A;  5FOK A;  1A0T P;  3EFM A;  3FHH A;  3CSN A;  4EPA A;  1NQG A;  3CSL A;  1MAL A;  3M8D A;  1FI1 A;  1MPR A;  4RDT A;  1QJQ A;  1NQE A;  1UJW A;  2MPR A;  2W78 A;  2IAH A;  2W75 A;  2HDI A;  1KMP A;  3V8X A;  1QFF A;  1NQH A;  2HDF A;  2O5P A;  1MPM A;  3RGM A;  1PO0 A;  2W6T A;  4AIQ A;  1XKW A; 
#chains in the Genus database with same CATH homology
 2W76 A;  1FEP A;  1BY5 A;  1BY3 A;  2GSK A;  1KMO A;  3DDR A;  2W16 A;  1QKC A;  2YSU A;  1NQF A;  3M8B A;  1FCP A;  4B7O A;  1QFG A;  1PO3 A;  1XKH A;  2W77 A;  4AIP A;  2FCP A;  2GUF A;  4RDT A;  4RDR A;  4CU4 A;  3V89 A;  3RGN A;  1PNZ A;  2W6U A;  2GRX A;  3QLB A;  5FOK A;  3EFM A;  3FHH A;  3CSN A;  4EPA A;  1NQG A;  3CSL A;  3M8D A;  1FI1 A;  1QJQ A;  1NQE A;  1UJW A;  2W78 A;  2IAH A;  2W75 A;  2HDI A;  1KMP A;  3V8X A;  1QFF A;  1NQH A;  2HDF A;  2O5P A;  3RGM A;  1PO0 A;  2W6T A;  4AIQ A;  1XKW A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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