3DRIA

Crystal structure of lactococcal oppa co-crystallized with an octamer peptide in an open 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
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 193
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 3driA02
4XKQA 4GF8A 1B3GA 1B58A 1B4HA 3O6PA 4RA1A 1B0HA 1B5IA 4PFWA 1B4ZA 3RY3A 4OESA 1B1HA 4XKPA 3QIMA 1B32A 4JSDA 3RQTA 4OERA 4I8CA 3DRIA 4PFTA 2RKMA 2WOKA 5F1QA 4QFOA 1UIVA 3MVYA 3DRKA 1B5HA 4ZEKA 4QFPA 3LVUA 3RYAA 2Z23A 3MW0A 1RKMA 5ISUA 3I5OA 2GRVA 3TCGA 1B51A 1UIUA 3DRJA 1DPPA 1QKBA 1UQWA 4DCXA 3MVXA 3ZS6A 4TOZA 5KZTA 1B2HA 1B7HA 1JETA 1ZTYA 3MVWA 4ZE8A 3RYBA 3MZBA 4ZEBA 1OLAA 1B9JA 4QFNA 4ZEDA 1B52A 2B4LA 3DRHA 3CHGA 1QKAA 4QFKA 1B40A 1B3FA 3MVZA 4OFJA 1JEUA 3MZ9A 4OETA 4GL8A 1OLCA 4XKNA 2NOOA 2WOPA 4GFRA 4QFLA 1B6HA 1B3LA 4PFYA 4FAJA 1XOCA 2B4MA 3DRGA 4OEUA 4WEDA 4OFLA 2O7IA 2D5WA 4DCYA 3E3KA 2OLBA 4OEVA 3DP8A 5ICQA 3FTOA 3PAMA 4I9DA 1ZLQA 5HM4B 4ONYA 4XKRA 4JSOA 4ZEIA 3T66A 5L8DA 1DPEA 1B5JA 2WOLA 1B3HA 3TCHA 1ZU0A 3M8UA 3TCFA 1B05A 1VR5A 3O9PA 4ZECA 4PFUA 1JEVA 4ZE9A 3DRFA 3TPAA 4OFOA 1B46A
chains in the Genus database with same CATH superfamily
4XKQA 4GF8A 1B3GA 1B58A 1B4HA 3O6PA 4RA1A 1B0HA 1B5IA 4PFWA 1B4ZA 3RY3A 4OESA 1B1HA 4XKPA 3QIMA 1B32A 4JSDA 3RQTA 4OERA 4I8CA 3DRIA 4PFTA 2RKMA 2WOKA 5F1QA 4QFOA 1UIVA 3MVYA 3DRKA 1B5HA 4ZEKA 4QFPA 3LVUA 3RYAA 2Z23A 3MW0A 1RKMA 5ISUA 3I5OA 2GRVA 3TCGA 1B51A 1UIUA 3DRJA 1DPPA 1QKBA 1UQWA 4DCXA 3MVXA 3ZS6A 4TOZA 5KZTA 1B2HA 1B7HA 1JETA 1ZTYA 3MVWA 4ZE8A 3RYBA 3MZBA 4ZEBA 1OLAA 1B9JA 4QFNA 4ZEDA 1B52A 2B4LA 3DRHA 3CHGA 1QKAA 4QFKA 1B40A 1B3FA 3MVZA 4OFJA 1JEUA 3MZ9A 4OETA 4GL8A 1OLCA 4XKNA 2NOOA 2WOPA 4GFRA 4QFLA 1B6HA 1B3LA 4PFYA 4FAJA 1XOCA 2B4MA 3DRGA 4OEUA 4WEDA 4OFLA 2O7IA 2D5WA 4DCYA 3E3KA 2OLBA 4OEVA 3DP8A 5ICQA 3FTOA 3PAMA 4I9DA 1ZLQA 5HM4B 4ONYA 4XKRA 4JSOA 4ZEIA 3T66A 5L8DA 1DPEA 1B5JA 2WOLA 1B3HA 3TCHA 1ZU0A 3M8UA 3TCFA 1B05A 1VR5A 3O9PA 4ZECA 4PFUA 1JEVA 4ZE9A 3DRFA 3TPAA 4OFOA 1B46A
chains in the Genus database with same CATH topology
4XKQA 4GF8A 1B3GA 1B58A 1B4HA 3O6PA 4RA1A 1B0HA 1B5IA 4PFWA 1B4ZA 3RY3A 4OESA 1B1HA 4XKPA 3QIMA 1B32A 4JSDA 3RQTA 4OERA 4I8CA 3DRIA 4PFTA 2RKMA 2WOKA 5F1QA 4QFOA 1UIVA 3MVYA 3DRKA 1B5HA 4ZEKA 4QFPA 3LVUA 3RYAA 2Z23A 3MW0A 1RKMA 5ISUA 3I5OA 2GRVA 3TCGA 1B51A 1UIUA 3DRJA 1DPPA 1QKBA 1UQWA 4DCXA 3MVXA 3ZS6A 4TOZA 5KZTA 1B2HA 1B7HA 1JETA 1ZTYA 3MVWA 4ZE8A 3RYBA 3MZBA 4ZEBA 1OLAA 1B9JA 4QFNA 4ZEDA 1B52A 2B4LA 3DRHA 3CHGA 1QKAA 4QFKA 1B40A 1B3FA 3MVZA 4OFJA 1JEUA 3MZ9A 4OETA 4GL8A 1OLCA 4XKNA 2NOOA 2WOPA 4GFRA 4QFLA 1B6HA 1B3LA 4PFYA 4FAJA 1XOCA 2B4MA 3DRGA 4OEUA 4WEDA 4OFLA 2O7IA 2D5WA 4DCYA 3E3KA 2OLBA 4OEVA 3DP8A 5ICQA 3FTOA 3PAMA 4I9DA 1ZLQA 5HM4B 4ONYA 4XKRA 4JSOA 4ZEIA 3T66A 5L8DA 1DPEA 1B5JA 2WOLA 1B3HA 3TCHA 1ZU0A 3M8UA 3TCFA 1B05A 1VR5A 3O9PA 4ZECA 4PFUA 1JEVA 4ZE9A 3DRFA 3TPAA 4OFOA 1B46A
chains in the Genus database with same CATH homology


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