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.

molecule keywords Oligopeptide-binding protein oppA
publication title The structural basis for peptide selection by the transport receptor OppA
pubmed doi rcsb
source organism Lactococcus lactis
molecule tags Peptide binding protein
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
3DRJA 5ICQA 2NOOA 5HM4B 4I9DA 1B40A 1B4HA 1RKMA 4I8CA 1DPPA 4ZEKA 4OFLA 4PFUA 4QFOA 1B5IA 1UIUA 3DRIA 3MVYA 4ZEDA 1B51A 1B5JA 1ZTYA 1B6HA 4QFKA 3PAMA 1B1HA 1VR5A 1JEVA 2GRVA 4PFTA 3FTOA 1JETA 1B7HA 3DRHA 4ZEIA 2B4LA 3QIMA 4ZECA 3ZS6A 1ZLQA 3RY3A 1B05A 1UQWA 3LVUA 4OERA 4ZE9A 3RYAA 4OEUA 4OFOA 4GF8A 4DCXA 3CHGA 3M8UA 1JEUA 4ZE8A 3MZBA 1OLCA 4TOZA 1B58A 3TCFA 1B4ZA 2WOKA 3MW0A 4JSDA 3T66A 3MVZA 4FAJA 2WOPA 5L8DA 3TCGA 3TPAA 3I5OA 4ONYA 4GL8A 3MZ9A 3RYBA 4QFNA 4RA1A 1DPEA 2D5WA 4OETA 3DRKA 4PFYA 4OEVA 5ISUA 1B3GA 1B52A 4OFJA 4DCYA 1B32A 3MVWA 1B9JA 4XKQA 2O7IA 1XOCA 1B2HA 2OLBA 3DRGA 1ZU0A 3MVXA 4XKNA 4XKPA 1B3HA 4GFRA 4ZEBA 1QKBA 1B5HA 4XKRA 5KZTA 1B3FA 3O6PA 1B0HA 1B46A 4WEDA 3TCHA 4OESA 3O9PA 1OLAA 3E3KA 5F1QA 1UIVA 3DRFA 2RKMA 4QFLA 2WOLA 4QFPA 2B4MA 3DP8A 1QKAA 1B3LA 4JSOA 2Z23A 3RQTA 4PFWA
chains in the Genus database with same CATH superfamily
3DRJA 5ICQA 2NOOA 5HM4B 4I9DA 1B40A 1B4HA 1RKMA 4I8CA 1DPPA 4ZEKA 4OFLA 4PFUA 4QFOA 1B5IA 1UIUA 3DRIA 3MVYA 4ZEDA 1B51A 1B5JA 1ZTYA 1B6HA 4QFKA 3PAMA 1B1HA 1VR5A 1JEVA 2GRVA 4PFTA 3FTOA 1JETA 1B7HA 3DRHA 4ZEIA 2B4LA 3QIMA 4ZECA 3ZS6A 1ZLQA 3RY3A 1B05A 1UQWA 3LVUA 4OERA 4ZE9A 3RYAA 4OEUA 4OFOA 4GF8A 4DCXA 3CHGA 3M8UA 1JEUA 4ZE8A 3MZBA 1OLCA 4TOZA 1B58A 3TCFA 1B4ZA 2WOKA 3MW0A 4JSDA 3T66A 3MVZA 4FAJA 2WOPA 5L8DA 3TCGA 3TPAA 3I5OA 4ONYA 4GL8A 3MZ9A 3RYBA 4QFNA 4RA1A 1DPEA 2D5WA 4OETA 3DRKA 4PFYA 4OEVA 5ISUA 1B3GA 1B52A 4OFJA 4DCYA 1B32A 3MVWA 1B9JA 4XKQA 2O7IA 1XOCA 1B2HA 2OLBA 3DRGA 1ZU0A 3MVXA 4XKNA 4XKPA 1B3HA 4GFRA 4ZEBA 1QKBA 1B5HA 4XKRA 5KZTA 1B3FA 3O6PA 1B0HA 1B46A 4WEDA 3TCHA 4OESA 3O9PA 1OLAA 3E3KA 5F1QA 1UIVA 3DRFA 2RKMA 4QFLA 2WOLA 4QFPA 2B4MA 3DP8A 1QKAA 1B3LA 4JSOA 2Z23A 3RQTA 4PFWA
chains in the Genus database with same CATH topology
3DRJA 5ICQA 2NOOA 5HM4B 4I9DA 1B40A 1B4HA 1RKMA 4I8CA 1DPPA 4ZEKA 4OFLA 4PFUA 4QFOA 1B5IA 1UIUA 3DRIA 3MVYA 4ZEDA 1B51A 1B5JA 1ZTYA 1B6HA 4QFKA 3PAMA 1B1HA 1VR5A 1JEVA 2GRVA 4PFTA 3FTOA 1JETA 1B7HA 3DRHA 4ZEIA 2B4LA 3QIMA 4ZECA 3ZS6A 1ZLQA 3RY3A 1B05A 1UQWA 3LVUA 4OERA 4ZE9A 3RYAA 4OEUA 4OFOA 4GF8A 4DCXA 3CHGA 3M8UA 1JEUA 4ZE8A 3MZBA 1OLCA 4TOZA 1B58A 3TCFA 1B4ZA 2WOKA 3MW0A 4JSDA 3T66A 3MVZA 4FAJA 2WOPA 5L8DA 3TCGA 3TPAA 3I5OA 4ONYA 4GL8A 3MZ9A 3RYBA 4QFNA 4RA1A 1DPEA 2D5WA 4OETA 3DRKA 4PFYA 4OEVA 5ISUA 1B3GA 1B52A 4OFJA 4DCYA 1B32A 3MVWA 1B9JA 4XKQA 2O7IA 1XOCA 1B2HA 2OLBA 3DRGA 1ZU0A 3MVXA 4XKNA 4XKPA 1B3HA 4GFRA 4ZEBA 1QKBA 1B5HA 4XKRA 5KZTA 1B3FA 3O6PA 1B0HA 1B46A 4WEDA 3TCHA 4OESA 3O9PA 1OLAA 3E3KA 5F1QA 1UIVA 3DRFA 2RKMA 4QFLA 2WOLA 4QFPA 2B4MA 3DP8A 1QKAA 1B3LA 4JSOA 2Z23A 3RQTA 4PFWA
chains in the Genus database with same CATH homology


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