3RYBA

Lactococcal oppa complexed with slsqslsqs
Total Genus 203
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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
203
sequence length
563
structure length
563
Chain Sequence
KLKAGNFDVAYQNPDKAIKGGNLKVAYQSDSPMKAQWLSGLSNDATFATMSGPGGGQDGLFFTDSGFKFIKGGAADVALDKESKTATITLRKDLKWSDGSEVTAKDYEFTYETIANPAYGSDRWTDSLANIVGLSDYHTGKAKTISGITFPDGENGKVIKVQFKEMKPGMTQSGNGYFLETVAPYQYLKDVAPKDLASSPKTTTKPLVTGPFKPENVVAGESIKYVPNPYYWGEKPKLNSITYEVVSTAKSVAALSSSKYDIINGMVSSQYKQVKNLKGYKVLGQQAMYISLMYYNLGHYDAKNSINVQDRKTPLQDQNVRQAIGYARNVAEVDNKFSNGLSTPANSLIPPIFKQFTSSSVKGYEKQDLDKANKLLDEDGWKLNKSTGYREKDGKELSLVYAARVGDANAETIAQNYIQQWKKIGVKVSLYNGKLMEFNSWVDHMTTPPGANDWDITDGSWSLASEPSQQDLFSAAAPYNFGHFNDSEITKDLNDIDSAKSENPTYRKAAFVKYQEDMNKKAYVIPTNFMLNYTPVNKRVVGMTLDYGAMNTWSEIGVSSAKL
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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 Importance of a Hydrophobic Pocket for Peptide Binding in Lactococcal OppA.
pubmed doi rcsb
source organism Lactococcus lactis
molecule tags Peptide binding protein
total genus 203
structure length 563
sequence length 563
ec nomenclature
pdb deposition date 2011-05-11

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 3rybA02
1B51A 2D5WA 4PFUA 4OFLA 1UIVA 1JEVA 3ZS6A 1B32A 3FTOA 3RQTA 3DRKA 1B3LA 4OFOA 2NOOA 3PAMA 3TCFA 4QFOA 1B3FA 1B6HA 1UIUA 4PFTA 4GL8A 4ONYA 3TCHA 2WOPA 4RA1A 1OLAA 4OETA 2GRVA 3MW0A 4ZEIA 4DCYA 3DP8A 4ZE9A 3MZBA 2WOLA 3DRIA 1B1HA 4GFRA 3RYAA 3O6PA 4JSDA 1DPEA 4FAJA 2B4MA 4I9DA 4WEDA 3DRFA 4ZECA 2B4LA 1VR5A 4OESA 3MVXA 4XKNA 1ZLQA 4QFKA 4TOZA 4XKRA 4ZEBA 1XOCA 4ZEDA 1B46A 3MVZA 3E3KA 1B58A 1B05A 3RY3A 4PFYA 3CHGA 3DRGA 3DRHA 5ICQA 1B7HA 1ZU0A 3MVWA 2Z23A 4OERA 4ZEKA 1B5IA 3MVYA 1B52A 2WOKA 1JEUA 1B40A 4JSOA 1B5HA 5L8DA 4PFWA 4XKPA 2O7IA 1RKMA 2OLBA 1B9JA 1DPPA 3QIMA 5ISUA 3RYBA 5KZTA 4QFLA 5HM4B 4I8CA 1ZTYA 3M8UA 3I5OA 4QFNA 4OEVA 1JETA 4GF8A 3TCGA 1B3HA 1B3GA 1QKBA 1B2HA 1B5JA 3T66A 3LVUA 1QKAA 4OFJA 1B4HA 5F1QA 4DCXA 4OEUA 3O9PA 1B4ZA 4ZE8A 2RKMA 3DRJA 3TPAA 1B0HA 4XKQA 4QFPA 1OLCA 3MZ9A 1UQWA
chains in the Genus database with same CATH superfamily
1B51A 2D5WA 4PFUA 4OFLA 1UIVA 1JEVA 3ZS6A 1B32A 3FTOA 3RQTA 3DRKA 1B3LA 4OFOA 2NOOA 3PAMA 3TCFA 4QFOA 1B3FA 1B6HA 1UIUA 4PFTA 4GL8A 4ONYA 3TCHA 2WOPA 4RA1A 1OLAA 4OETA 2GRVA 3MW0A 4ZEIA 4DCYA 3DP8A 4ZE9A 3MZBA 2WOLA 3DRIA 1B1HA 4GFRA 3RYAA 3O6PA 4JSDA 1DPEA 4FAJA 2B4MA 4I9DA 4WEDA 3DRFA 4ZECA 2B4LA 1VR5A 4OESA 3MVXA 4XKNA 1ZLQA 4QFKA 4TOZA 4XKRA 4ZEBA 1XOCA 4ZEDA 1B46A 3MVZA 3E3KA 1B58A 1B05A 3RY3A 4PFYA 3CHGA 3DRGA 3DRHA 5ICQA 1B7HA 1ZU0A 3MVWA 2Z23A 4OERA 4ZEKA 1B5IA 3MVYA 1B52A 2WOKA 1JEUA 1B40A 4JSOA 1B5HA 5L8DA 4PFWA 4XKPA 2O7IA 1RKMA 2OLBA 1B9JA 1DPPA 3QIMA 5ISUA 3RYBA 5KZTA 4QFLA 5HM4B 4I8CA 1ZTYA 3M8UA 3I5OA 4QFNA 4OEVA 1JETA 4GF8A 3TCGA 1B3HA 1B3GA 1QKBA 1B2HA 1B5JA 3T66A 3LVUA 1QKAA 4OFJA 1B4HA 5F1QA 4DCXA 4OEUA 3O9PA 1B4ZA 4ZE8A 2RKMA 3DRJA 3TPAA 1B0HA 4XKQA 4QFPA 1OLCA 3MZ9A 1UQWA
chains in the Genus database with same CATH topology
1B51A 2D5WA 4PFUA 4OFLA 1UIVA 1JEVA 3ZS6A 1B32A 3FTOA 3RQTA 3DRKA 1B3LA 4OFOA 2NOOA 3PAMA 3TCFA 4QFOA 1B3FA 1B6HA 1UIUA 4PFTA 4GL8A 4ONYA 3TCHA 2WOPA 4RA1A 1OLAA 4OETA 2GRVA 3MW0A 4ZEIA 4DCYA 3DP8A 4ZE9A 3MZBA 2WOLA 3DRIA 1B1HA 4GFRA 3RYAA 3O6PA 4JSDA 1DPEA 4FAJA 2B4MA 4I9DA 4WEDA 3DRFA 4ZECA 2B4LA 1VR5A 4OESA 3MVXA 4XKNA 1ZLQA 4QFKA 4TOZA 4XKRA 4ZEBA 1XOCA 4ZEDA 1B46A 3MVZA 3E3KA 1B58A 1B05A 3RY3A 4PFYA 3CHGA 3DRGA 3DRHA 5ICQA 1B7HA 1ZU0A 3MVWA 2Z23A 4OERA 4ZEKA 1B5IA 3MVYA 1B52A 2WOKA 1JEUA 1B40A 4JSOA 1B5HA 5L8DA 4PFWA 4XKPA 2O7IA 1RKMA 2OLBA 1B9JA 1DPPA 3QIMA 5ISUA 3RYBA 5KZTA 4QFLA 5HM4B 4I8CA 1ZTYA 3M8UA 3I5OA 4QFNA 4OEVA 1JETA 4GF8A 3TCGA 1B3HA 1B3GA 1QKBA 1B2HA 1B5JA 3T66A 3LVUA 1QKAA 4OFJA 1B4HA 5F1QA 4DCXA 4OEUA 3O9PA 1B4ZA 4ZE8A 2RKMA 3DRJA 3TPAA 1B0HA 4XKQA 4QFPA 1OLCA 3MZ9A 1UQWA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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