3DRJA

Crystal structure of lactococcal oppa co-crystallized with pth-related peptide in an open conformation
Total Genus 192
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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
192
sequence length
560
structure length
560
Chain Sequence
LKAGNFDVAYQNPDKAIKGGNLKVAYQSDSPMKAQWLSGLSNDATFATMSGPGGGQDGLFFTDSGFKFIKGGAADVALDKESKTATITLRKDLKWSDGSEVTAKDYEFTYETIANPAYGSDRWTDSLANIVGLSDYHTGKAKTISGITFPDGENGKVIKVQFKEMKPGMTQSGNGYFLETVAPYQYLKDVAPKDLASSPKTTTKPLVTGPFKPENVVAGESIKYVPNPYYWGEKPKLNSITYEVVSTAKSVAALSSSKYDIINGMVSSQYKQVKNLKGYKVLGQQAMYISLMYYNLGHYDAKNSINVQDRKTPLQDQNVRQAIGYARNVAEVDNKFSNGLSTPANSLIPPIFKQFTSSSVKGYEKQDLDKANKLLDEDGWKLNKSTGYREKDGKELSLVYAARVGDANAETIAQNYIQQWKKIGVKVSLYNGKLMEFNSWVDHMTTPPGANDWDITDGSWSLASEPSQQDLFSAAAPYNFGHFNDSEITKDLNDIDSAKSENPTYRKAAFVKYQEDMNKKAYVIPTNFMLNYTPVNKRVVGMTLDYGAMNTWSEIGVSSA
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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 192
structure length 560
sequence length 560
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 3drjA02
3M8UA 4QFPA 4QFNA 3E3KA 1UQWA 3ZS6A 4OERA 3TCGA 3MW0A 4RA1A 3CHGA 3DRKA 3MVXA 2WOPA 4ZE9A 1B3LA 2B4LA 1B05A 4PFYA 3DRHA 2B4MA 3MZBA 4I8CA 4PFUA 1OLAA 2GRVA 4QFLA 3T66A 1VR5A 3PAMA 1ZU0A 4ZEKA 5L8DA 5ISUA 4XKRA 4ZEDA 3RY3A 3QIMA 2RKMA 3RYAA 1B2HA 4XKPA 1JEUA 5HM4B 1RKMA 1B5IA 4GFRA 1B3HA 1B52A 2O7IA 4ZEBA 1JETA 4QFOA 4OFOA 4I9DA 1XOCA 3DRIA 3MVWA 3MVYA 4TOZA 3TCFA 2WOLA 3FTOA 4ZEIA 3DRFA 2OLBA 1UIVA 4OESA 1B1HA 4GF8A 1B6HA 2WOKA 4QFKA 4OFJA 4OETA 1B3GA 4XKQA 4OEUA 4JSDA 4ZE8A 4OEVA 1JEVA 3MZ9A 1B58A 1B7HA 1QKAA 4DCXA 1B51A 4FAJA 1B0HA 5F1QA 1B3FA 1B5HA 4GL8A 4OFLA 4ONYA 3DRJA 3DRGA 4DCYA 4ZECA 1DPPA 3MVZA 4PFWA 5KZTA 3O6PA 1OLCA 3TPAA 5ICQA 3I5OA 1QKBA 1B40A 2D5WA 4XKNA 1DPEA 3RYBA 1B4ZA 1B32A 1UIUA 1B9JA 1ZTYA 3RQTA 4PFTA 2NOOA 3LVUA 3TCHA 3DP8A 1B4HA 1B46A 2Z23A 4JSOA 3O9PA 1B5JA 1ZLQA 4WEDA
chains in the Genus database with same CATH superfamily
3M8UA 4QFPA 4QFNA 3E3KA 1UQWA 3ZS6A 4OERA 3TCGA 3MW0A 4RA1A 3CHGA 3DRKA 3MVXA 2WOPA 4ZE9A 1B3LA 2B4LA 1B05A 4PFYA 3DRHA 2B4MA 3MZBA 4I8CA 4PFUA 1OLAA 2GRVA 4QFLA 3T66A 1VR5A 3PAMA 1ZU0A 4ZEKA 5L8DA 5ISUA 4XKRA 4ZEDA 3RY3A 3QIMA 2RKMA 3RYAA 1B2HA 4XKPA 1JEUA 5HM4B 1RKMA 1B5IA 4GFRA 1B3HA 1B52A 2O7IA 4ZEBA 1JETA 4QFOA 4OFOA 4I9DA 1XOCA 3DRIA 3MVWA 3MVYA 4TOZA 3TCFA 2WOLA 3FTOA 4ZEIA 3DRFA 2OLBA 1UIVA 4OESA 1B1HA 4GF8A 1B6HA 2WOKA 4QFKA 4OFJA 4OETA 1B3GA 4XKQA 4OEUA 4JSDA 4ZE8A 4OEVA 1JEVA 3MZ9A 1B58A 1B7HA 1QKAA 4DCXA 1B51A 4FAJA 1B0HA 5F1QA 1B3FA 1B5HA 4GL8A 4OFLA 4ONYA 3DRJA 3DRGA 4DCYA 4ZECA 1DPPA 3MVZA 4PFWA 5KZTA 3O6PA 1OLCA 3TPAA 5ICQA 3I5OA 1QKBA 1B40A 2D5WA 4XKNA 1DPEA 3RYBA 1B4ZA 1B32A 1UIUA 1B9JA 1ZTYA 3RQTA 4PFTA 2NOOA 3LVUA 3TCHA 3DP8A 1B4HA 1B46A 2Z23A 4JSOA 3O9PA 1B5JA 1ZLQA 4WEDA
chains in the Genus database with same CATH topology
3M8UA 4QFPA 4QFNA 3E3KA 1UQWA 3ZS6A 4OERA 3TCGA 3MW0A 4RA1A 3CHGA 3DRKA 3MVXA 2WOPA 4ZE9A 1B3LA 2B4LA 1B05A 4PFYA 3DRHA 2B4MA 3MZBA 4I8CA 4PFUA 1OLAA 2GRVA 4QFLA 3T66A 1VR5A 3PAMA 1ZU0A 4ZEKA 5L8DA 5ISUA 4XKRA 4ZEDA 3RY3A 3QIMA 2RKMA 3RYAA 1B2HA 4XKPA 1JEUA 5HM4B 1RKMA 1B5IA 4GFRA 1B3HA 1B52A 2O7IA 4ZEBA 1JETA 4QFOA 4OFOA 4I9DA 1XOCA 3DRIA 3MVWA 3MVYA 4TOZA 3TCFA 2WOLA 3FTOA 4ZEIA 3DRFA 2OLBA 1UIVA 4OESA 1B1HA 4GF8A 1B6HA 2WOKA 4QFKA 4OFJA 4OETA 1B3GA 4XKQA 4OEUA 4JSDA 4ZE8A 4OEVA 1JEVA 3MZ9A 1B58A 1B7HA 1QKAA 4DCXA 1B51A 4FAJA 1B0HA 5F1QA 1B3FA 1B5HA 4GL8A 4OFLA 4ONYA 3DRJA 3DRGA 4DCYA 4ZECA 1DPPA 3MVZA 4PFWA 5KZTA 3O6PA 1OLCA 3TPAA 5ICQA 3I5OA 1QKBA 1B40A 2D5WA 4XKNA 1DPEA 3RYBA 1B4ZA 1B32A 1UIUA 1B9JA 1ZTYA 3RQTA 4PFTA 2NOOA 3LVUA 3TCHA 3DP8A 1B4HA 1B46A 2Z23A 4JSOA 3O9PA 1B5JA 1ZLQA 4WEDA
chains in the Genus database with same CATH homology


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