3DRFA

Lactococcal oppa complexed with an endogenous peptide in the closed conformation
Total Genus 193
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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
193
sequence length
539
structure length
539
Chain Sequence
GGNLKVAYQSDSPMKAQWLSGLSNDATFATMSGPGGGQDGLFFTDSGFKFIKGGAADVALDKESKTATITLRKDLKWSDGSEVTAKDYEFTYETIANPAYGSDRWTDSLANIVGLSDYHTGKAKTISGITFPDGENGKVIKVQFKEMKPGMTQSGNGYFLETVAPYQYLKDVAPKDLASSPKTTTKPLVTGPFKPENVVAGESIKYVPNPYYWGEKPKLNSITYEVVSTAKSVAALSSSKYDIINGMVSSQYKQVKNLKGYKVLGQQAMYISLMYYNLGHYDAKNSINVQDRKTPLQDQNVRQAIGYARNVAEVDNKFSNGLSTPANSLIPPIFKQFTSSSVKGYEKQDLDKANKLLDEDGWKLNKSTGYREKDGKELSLVYAARVGDANAETIAQNYIQQWKKIGVKVSLYNGKLMEFNSWVDHMTTPPGANDWDITDGSWSLASEPSQQDLFSAAAPYNFGHFNDSEITKDLNDIDSAKSENPTYRKAAFVKYQEDMNKKAYVIPTNFMLNYTPVNKRVVGMTLDYGAMNTWSEIGV
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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.

publication title The structural basis for peptide selection by the transport receptor OppA
pubmed doi rcsb
molecule tags Peptide binding protein
source organism Lactococcus lactis
molecule keywords Oligopeptide-binding protein oppA
total genus 193
structure length 539
sequence length 539
ec nomenclature
pdb deposition date 2008-07-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00496 SBP_bac_5 Bacterial extracellular solute-binding proteins, family 5 Middle
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.105.10 Alpha Beta Roll Dipeptide-binding Protein; domain 3 Dipeptide-binding Protein; Domain 3 3drfA02
1B46A 3MVWA 4WEDA 1B0HA 2WOPA 4OERA 1ZU0A 5L8DA 3CHGA 4JSOA 4PFWA 3RYAA 4ZE9A 1OLAA 1ZLQA 1B5JA 1QKBA 4XKPA 3TCFA 1JEVA 1B5IA 1ZTYA 2O7IA 4XKQA 1B2HA 2B4MA 4I8CA 1B7HA 1QKAA 4RA1A 3I5OA 4ZECA 3ZS6A 1B3FA 3MW0A 4PFUA 4QFOA 1B6HA 4ZE8A 1RKMA 1B32A 5KZTA 1B58A 3DRHA 5ISUA 2NOOA 2WOLA 4XKRA 3LVUA 3DRFA 3RY3A 3MVYA 1B1HA 4PFTA 3DRJA 3RQTA 2WOKA 2OLBA 3M8UA 4DCXA 1DPEA 1B52A 3T66A 1B05A 3TCGA 3O6PA 4XKNA 3QIMA 4OFOA 4ZEIA 1VR5A 4ZEBA 3DRGA 5F1QA 4ZEKA 1B3HA 1B40A 1XOCA 3DRKA 5ICQA 3TPAA 4ZEDA 4QFKA 3TCHA 4QFPA 3E3KA 3MVZA 3MZBA 4PFYA 1DPPA 1B3LA 4QFLA 4OETA 4DCYA 4OFJA 1JEUA 1B4HA 4OESA 3FTOA 2RKMA 4I9DA 4FAJA 2Z23A 1UQWA 4ONYA 3PAMA 4GL8A 1B9JA 1UIVA 3MZ9A 4OEVA 1B5HA 4GFRA 2GRVA 4GF8A 1JETA 1OLCA 4QFNA 1UIUA 3MVXA 1B3GA 3RYBA 3DRIA 4JSDA 2B4LA 2D5WA 5HM4B 4TOZA 1B51A 1B4ZA 3O9PA 4OEUA 3DP8A 4OFLA
chains in the Genus database with same CATH superfamily
1B46A 3MVWA 4WEDA 1B0HA 2WOPA 4OERA 1ZU0A 5L8DA 3CHGA 4JSOA 4PFWA 3RYAA 4ZE9A 1OLAA 1ZLQA 1B5JA 1QKBA 4XKPA 3TCFA 1JEVA 1B5IA 1ZTYA 2O7IA 4XKQA 1B2HA 2B4MA 4I8CA 1B7HA 1QKAA 4RA1A 3I5OA 4ZECA 3ZS6A 1B3FA 3MW0A 4PFUA 4QFOA 1B6HA 4ZE8A 1RKMA 1B32A 5KZTA 1B58A 3DRHA 5ISUA 2NOOA 2WOLA 4XKRA 3LVUA 3DRFA 3RY3A 3MVYA 1B1HA 4PFTA 3DRJA 3RQTA 2WOKA 2OLBA 3M8UA 4DCXA 1DPEA 1B52A 3T66A 1B05A 3TCGA 3O6PA 4XKNA 3QIMA 4OFOA 4ZEIA 1VR5A 4ZEBA 3DRGA 5F1QA 4ZEKA 1B3HA 1B40A 1XOCA 3DRKA 5ICQA 3TPAA 4ZEDA 4QFKA 3TCHA 4QFPA 3E3KA 3MVZA 3MZBA 4PFYA 1DPPA 1B3LA 4QFLA 4OETA 4DCYA 4OFJA 1JEUA 1B4HA 4OESA 3FTOA 2RKMA 4I9DA 4FAJA 2Z23A 1UQWA 4ONYA 3PAMA 4GL8A 1B9JA 1UIVA 3MZ9A 4OEVA 1B5HA 4GFRA 2GRVA 4GF8A 1JETA 1OLCA 4QFNA 1UIUA 3MVXA 1B3GA 3RYBA 3DRIA 4JSDA 2B4LA 2D5WA 5HM4B 4TOZA 1B51A 1B4ZA 3O9PA 4OEUA 3DP8A 4OFLA
chains in the Genus database with same CATH topology
1B46A 3MVWA 4WEDA 1B0HA 2WOPA 4OERA 1ZU0A 5L8DA 3CHGA 4JSOA 4PFWA 3RYAA 4ZE9A 1OLAA 1ZLQA 1B5JA 1QKBA 4XKPA 3TCFA 1JEVA 1B5IA 1ZTYA 2O7IA 4XKQA 1B2HA 2B4MA 4I8CA 1B7HA 1QKAA 4RA1A 3I5OA 4ZECA 3ZS6A 1B3FA 3MW0A 4PFUA 4QFOA 1B6HA 4ZE8A 1RKMA 1B32A 5KZTA 1B58A 3DRHA 5ISUA 2NOOA 2WOLA 4XKRA 3LVUA 3DRFA 3RY3A 3MVYA 1B1HA 4PFTA 3DRJA 3RQTA 2WOKA 2OLBA 3M8UA 4DCXA 1DPEA 1B52A 3T66A 1B05A 3TCGA 3O6PA 4XKNA 3QIMA 4OFOA 4ZEIA 1VR5A 4ZEBA 3DRGA 5F1QA 4ZEKA 1B3HA 1B40A 1XOCA 3DRKA 5ICQA 3TPAA 4ZEDA 4QFKA 3TCHA 4QFPA 3E3KA 3MVZA 3MZBA 4PFYA 1DPPA 1B3LA 4QFLA 4OETA 4DCYA 4OFJA 1JEUA 1B4HA 4OESA 3FTOA 2RKMA 4I9DA 4FAJA 2Z23A 1UQWA 4ONYA 3PAMA 4GL8A 1B9JA 1UIVA 3MZ9A 4OEVA 1B5HA 4GFRA 2GRVA 4GF8A 1JETA 1OLCA 4QFNA 1UIUA 3MVXA 1B3GA 3RYBA 3DRIA 4JSDA 2B4LA 2D5WA 5HM4B 4TOZA 1B51A 1B4ZA 3O9PA 4OEUA 3DP8A 4OFLA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1B46 A;  3MVW A;  4WED A;  1B0H A;  2WOP A;  4OER A;  1ZU0 A;  5L8D A;  3CHG A;  4JSO A;  4PFW A;  3RYA A;  4ZE9 A;  1OLA A;  1ZLQ A;  1B5J A;  1QKB A;  4XKP A;  3TCF A;  1JEV A;  1B5I A;  1ZTY A;  2O7I A;  4XKQ A;  1B2H A;  2B4M A;  4I8C A;  1B7H A;  1QKA A;  4RA1 A;  3I5O A;  4ZEC A;  3ZS6 A;  1B3F A;  3MW0 A;  4PFU A;  4QFO A;  1B6H A;  4ZE8 A;  1RKM A;  1B32 A;  5KZT A;  1B58 A;  3DRH A;  5ISU A;  2NOO A;  2WOL A;  4XKR A;  3LVU A;  3DRF A;  3RY3 A;  3MVY A;  1B1H A;  4PFT A;  3DRJ A;  3RQT A;  2WOK A;  2OLB A;  3M8U A;  4DCX A;  1DPE A;  1B52 A;  3T66 A;  1B05 A;  3TCG A;  3O6P A;  4XKN A;  3QIM A;  4OFO A;  4ZEI A;  1VR5 A;  4ZEB A;  3DRG A;  5F1Q A;  4ZEK A;  1B3H A;  1B40 A;  1XOC A;  3DRK A;  5ICQ A;  3TPA A;  4ZED A;  4QFK A;  3TCH A;  4QFP A;  3E3K A;  3MVZ A;  3MZB A;  4PFY A;  1DPP A;  1B3L A;  4QFL A;  4OET A;  4DCY A;  4OFJ A;  1JEU A;  1B4H A;  4OES A;  3FTO A;  2RKM A;  4I9D A;  4FAJ A;  2Z23 A;  1UQW A;  4ONY A;  3PAM A;  4GL8 A;  1B9J A;  1UIV A;  3MZ9 A;  4OEV A;  1B5H A;  4GFR A;  2GRV A;  4GF8 A;  1JET A;  1OLC A;  4QFN A;  1UIU A;  3MVX A;  1B3G A;  3RYB A;  3DRI A;  4JSD A;  2B4L A;  2D5W A;  5HM4 B;  4TOZ A;  1B51 A;  1B4Z A;  3O9P A;  4OEU A;  3DP8 A;  4OFL A; 
#chains in the Genus database with same CATH topology
 1B46 A;  3MVW A;  4WED A;  1B0H A;  2WOP A;  4OER A;  1ZU0 A;  5L8D A;  3CHG A;  4JSO A;  4PFW A;  3RYA A;  4ZE9 A;  1OLA A;  1ZLQ A;  1B5J A;  1QKB A;  4XKP A;  3TCF A;  1JEV A;  1B5I A;  1ZTY A;  2O7I A;  4XKQ A;  1B2H A;  2B4M A;  4I8C A;  1B7H A;  1QKA A;  4RA1 A;  3I5O A;  4ZEC A;  3ZS6 A;  1B3F A;  3MW0 A;  4PFU A;  4QFO A;  1B6H A;  4ZE8 A;  1RKM A;  1B32 A;  5KZT A;  1B58 A;  3DRH A;  5ISU A;  2NOO A;  2WOL A;  4XKR A;  3LVU A;  3DRF A;  3RY3 A;  3MVY A;  1B1H A;  4PFT A;  3DRJ A;  3RQT A;  2WOK A;  2OLB A;  3M8U A;  4DCX A;  1DPE A;  1B52 A;  3T66 A;  1B05 A;  3TCG A;  3O6P A;  4XKN A;  3QIM A;  4OFO A;  4ZEI A;  1VR5 A;  4ZEB A;  3DRG A;  5F1Q A;  4ZEK A;  1B3H A;  1B40 A;  1XOC A;  3DRK A;  5ICQ A;  3TPA A;  4ZED A;  4QFK A;  3TCH A;  4QFP A;  3E3K A;  3MVZ A;  3MZB A;  4PFY A;  1DPP A;  1B3L A;  4QFL A;  4OET A;  4DCY A;  4OFJ A;  1JEU A;  1B4H A;  4OES A;  3FTO A;  2RKM A;  4I9D A;  4FAJ A;  2Z23 A;  1UQW A;  4ONY A;  3PAM A;  4GL8 A;  1B9J A;  1UIV A;  3MZ9 A;  4OEV A;  1B5H A;  4GFR A;  2GRV A;  4GF8 A;  1JET A;  1OLC A;  4QFN A;  1UIU A;  3MVX A;  1B3G A;  3RYB A;  3DRI A;  4JSD A;  2B4L A;  2D5W A;  5HM4 B;  4TOZ A;  1B51 A;  1B4Z A;  3O9P A;  4OEU A;  3DP8 A;  4OFL A; 
#chains in the Genus database with same CATH homology
 1B46 A;  3MVW A;  4WED A;  1B0H A;  2WOP A;  4OER A;  1ZU0 A;  5L8D A;  3CHG A;  4JSO A;  4PFW A;  3RYA A;  4ZE9 A;  1OLA A;  1ZLQ A;  1B5J A;  1QKB A;  4XKP A;  3TCF A;  1JEV A;  1B5I A;  1ZTY A;  2O7I A;  4XKQ A;  1B2H A;  2B4M A;  4I8C A;  1B7H A;  1QKA A;  4RA1 A;  3I5O A;  4ZEC A;  3ZS6 A;  1B3F A;  3MW0 A;  4PFU A;  4QFO A;  1B6H A;  4ZE8 A;  1RKM A;  1B32 A;  5KZT A;  1B58 A;  3DRH A;  5ISU A;  2NOO A;  2WOL A;  4XKR A;  3LVU A;  3DRF A;  3RY3 A;  3MVY A;  1B1H A;  4PFT A;  3DRJ A;  3RQT A;  2WOK A;  2OLB A;  3M8U A;  4DCX A;  1DPE A;  1B52 A;  3T66 A;  1B05 A;  3TCG A;  3O6P A;  4XKN A;  3QIM A;  4OFO A;  4ZEI A;  1VR5 A;  4ZEB A;  3DRG A;  5F1Q A;  4ZEK A;  1B3H A;  1B40 A;  1XOC A;  3DRK A;  5ICQ A;  3TPA A;  4ZED A;  4QFK A;  3TCH A;  4QFP A;  3E3K A;  3MVZ A;  3MZB A;  4PFY A;  1DPP A;  1B3L A;  4QFL A;  4OET A;  4DCY A;  4OFJ A;  1JEU A;  1B4H A;  4OES A;  3FTO A;  2RKM A;  4I9D A;  4FAJ A;  2Z23 A;  1UQW A;  4ONY A;  3PAM A;  4GL8 A;  1B9J A;  1UIV A;  3MZ9 A;  4OEV A;  1B5H A;  4GFR A;  2GRV A;  4GF8 A;  1JET A;  1OLC A;  4QFN A;  1UIU A;  3MVX A;  1B3G A;  3RYB A;  3DRI A;  4JSD A;  2B4L A;  2D5W A;  5HM4 B;  4TOZ A;  1B51 A;  1B4Z A;  3O9P A;  4OEU A;  3DP8 A;  4OFL 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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