3DRKA

Crystal structure of lactococcal oppa co-crystallized with neuropeptide s in an open conformation
Total Genus 196
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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
196
sequence length
559
structure length
559
Chain Sequence
LKAGNFDVAYQNPDKAIKGGNLKVAYQSDSPMKAQWLSGLSNDATFATMSGPGGGQDGLFFTDSGFKFIKGGAADVALDKESKTATITLRKDLKWSDGSEVTAKDYEFTYETIANPAYGSDRWTDSLANIVGLSDYHTGKAKTISGITFPDGENGKVIKVQFKEMKPGMTQSGNGYFLETVAPYQYLKDVAPKDLASSPKTTTKPLVTGPFKPENVVAGESIKYVPNPYYWGEKPKLNSITYEVVSTAKSVAALSSSKYDIINGMVSSQYKQVKNLKGYKVLGQQAMYISLMYYNLGHYDAKNSINVQDRKTPLQDQNVRQAIGYARNVAEVDNKFSNGLSTPANSLIPPIFKQFTSSSVKGYEKQDLDKANKLLDEDGWKLNKSTGYREKDGKELSLVYAARVGDANAETIAQNYIQQWKKIGVKVSLYNGKLMEFNSWVDHMTTPPGANDWDITDGSWSLASEPSQQDLFSAAAPYNFGHFNDSEITKDLNDIDSAKSENPTYRKAAFVKYQEDMNKKAYVIPTNFMLNYTPVNKRVVGMTLDYGAMNTWSEIGVSS
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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 196
structure length 559
sequence length 559
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 3drkA02
4ZECA 2GRVA 4QFPA 1JEUA 1OLAA 3CHGA 1B9JA 4ZE8A 4OERA 5L8DA 4PFTA 4OEVA 2NOOA 3PAMA 1B5IA 4PFWA 3T66A 3ZS6A 1B4ZA 5F1QA 3M8UA 2WOLA 5KZTA 1JETA 1B3GA 3RQTA 3MZBA 4QFOA 4TOZA 2Z23A 4JSDA 4OETA 5ICQA 1B52A 3TCGA 4FAJA 1VR5A 3DRHA 3QIMA 1B58A 3DRGA 3TCHA 1DPEA 4PFYA 4OEUA 4JSOA 4GL8A 1JEVA 2B4MA 4GFRA 3DRFA 4ONYA 3MW0A 1B4HA 2WOPA 2B4LA 4OFOA 3DP8A 4DCXA 1B3HA 1B32A 4I8CA 3O6PA 3O9PA 1B40A 2WOKA 3TCFA 1B2HA 4ZEIA 3DRJA 4ZEBA 3I5OA 4OFJA 4ZE9A 2O7IA 4XKQA 1OLCA 1ZTYA 1ZU0A 1B7HA 3DRIA 4ZEDA 4PFUA 1B5HA 2OLBA 1B3FA 1B46A 1QKBA 1B05A 3MZ9A 3RYAA 1B6HA 1B1HA 3FTOA 1B51A 3E3KA 4OESA 4I9DA 3LVUA 3MVZA 2RKMA 2D5WA 4DCYA 1B0HA 1RKMA 3MVYA 4XKNA 5ISUA 4GF8A 4QFKA 4WEDA 4QFNA 1QKAA 4OFLA 3MVWA 4QFLA 1UIVA 1B5JA 1DPPA 1UQWA 4ZEKA 3DRKA 1ZLQA 4RA1A 5HM4B 4XKPA 3TPAA 3MVXA 4XKRA 3RY3A 1XOCA 1UIUA 1B3LA 3RYBA
chains in the Genus database with same CATH superfamily
4ZECA 2GRVA 4QFPA 1JEUA 1OLAA 3CHGA 1B9JA 4ZE8A 4OERA 5L8DA 4PFTA 4OEVA 2NOOA 3PAMA 1B5IA 4PFWA 3T66A 3ZS6A 1B4ZA 5F1QA 3M8UA 2WOLA 5KZTA 1JETA 1B3GA 3RQTA 3MZBA 4QFOA 4TOZA 2Z23A 4JSDA 4OETA 5ICQA 1B52A 3TCGA 4FAJA 1VR5A 3DRHA 3QIMA 1B58A 3DRGA 3TCHA 1DPEA 4PFYA 4OEUA 4JSOA 4GL8A 1JEVA 2B4MA 4GFRA 3DRFA 4ONYA 3MW0A 1B4HA 2WOPA 2B4LA 4OFOA 3DP8A 4DCXA 1B3HA 1B32A 4I8CA 3O6PA 3O9PA 1B40A 2WOKA 3TCFA 1B2HA 4ZEIA 3DRJA 4ZEBA 3I5OA 4OFJA 4ZE9A 2O7IA 4XKQA 1OLCA 1ZTYA 1ZU0A 1B7HA 3DRIA 4ZEDA 4PFUA 1B5HA 2OLBA 1B3FA 1B46A 1QKBA 1B05A 3MZ9A 3RYAA 1B6HA 1B1HA 3FTOA 1B51A 3E3KA 4OESA 4I9DA 3LVUA 3MVZA 2RKMA 2D5WA 4DCYA 1B0HA 1RKMA 3MVYA 4XKNA 5ISUA 4GF8A 4QFKA 4WEDA 4QFNA 1QKAA 4OFLA 3MVWA 4QFLA 1UIVA 1B5JA 1DPPA 1UQWA 4ZEKA 3DRKA 1ZLQA 4RA1A 5HM4B 4XKPA 3TPAA 3MVXA 4XKRA 3RY3A 1XOCA 1UIUA 1B3LA 3RYBA
chains in the Genus database with same CATH topology
4ZECA 2GRVA 4QFPA 1JEUA 1OLAA 3CHGA 1B9JA 4ZE8A 4OERA 5L8DA 4PFTA 4OEVA 2NOOA 3PAMA 1B5IA 4PFWA 3T66A 3ZS6A 1B4ZA 5F1QA 3M8UA 2WOLA 5KZTA 1JETA 1B3GA 3RQTA 3MZBA 4QFOA 4TOZA 2Z23A 4JSDA 4OETA 5ICQA 1B52A 3TCGA 4FAJA 1VR5A 3DRHA 3QIMA 1B58A 3DRGA 3TCHA 1DPEA 4PFYA 4OEUA 4JSOA 4GL8A 1JEVA 2B4MA 4GFRA 3DRFA 4ONYA 3MW0A 1B4HA 2WOPA 2B4LA 4OFOA 3DP8A 4DCXA 1B3HA 1B32A 4I8CA 3O6PA 3O9PA 1B40A 2WOKA 3TCFA 1B2HA 4ZEIA 3DRJA 4ZEBA 3I5OA 4OFJA 4ZE9A 2O7IA 4XKQA 1OLCA 1ZTYA 1ZU0A 1B7HA 3DRIA 4ZEDA 4PFUA 1B5HA 2OLBA 1B3FA 1B46A 1QKBA 1B05A 3MZ9A 3RYAA 1B6HA 1B1HA 3FTOA 1B51A 3E3KA 4OESA 4I9DA 3LVUA 3MVZA 2RKMA 2D5WA 4DCYA 1B0HA 1RKMA 3MVYA 4XKNA 5ISUA 4GF8A 4QFKA 4WEDA 4QFNA 1QKAA 4OFLA 3MVWA 4QFLA 1UIVA 1B5JA 1DPPA 1UQWA 4ZEKA 3DRKA 1ZLQA 4RA1A 5HM4B 4XKPA 3TPAA 3MVXA 4XKRA 3RY3A 1XOCA 1UIUA 1B3LA 3RYBA
chains in the Genus database with same CATH homology


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