3D2DA

Structure of berberine bridge enzyme in complex with (s)-reticuline
Total Genus 162
Loading diagram...

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
162
sequence length
500
structure length
500
Chain Sequence
AEAGNDLLSCLTFNGVRNHTVFSADSDSDFNRFLHLSIQNPLFQNSLISKPSAIILPGSKEELSNTIRCIRKGSWTIRLRSGGHSYEGLSYTSDTPFILIDLMNLNRVSIDLESETAWVESGSTLGELYYAITESSSKLGFTAGWCPTVGTGGHISGGGFGMMSRKYGLAADNVVDAILIDANGAILDRQAMGEDVFWAIRGGGGGVWGAIYAWKIKLLPVPEKVTVFRVTKNVAIDEATSLLHKWQFVAEELEEDFTLSVLGGADEKQVWLTMLGFHFGLKTVAKSTFDLLFPELGLVEEDYLEMSWGESFAYLAGLETVSQLNNRFLKFDERAFKTKVDLTKEPLPSKAFYGLLERLSKEPNGFIALNGFGGQMSKISSDFTPFPHRSGTRLMVEYIVAWNQSEQKKKTEFLDWLEKVYEFMKPFVSKNPRLGYVNHIDLDLGGIDWGNKTVVNNAIEISRSWGESYFLSNYERLIRAKTLIDPNNVFNHPQSIPPMA
Loading diagram...

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 berberine bridge-forming enzyme
publication title A concerted mechanism for berberine bridge enzyme
pubmed doi rcsb
source organism Eschscholzia californica
molecule tags Oxidoreductase
total genus 162
structure length 500
sequence length 500
ec nomenclature ec 1.21.3.3: Reticuline oxidase.
pdb deposition date 2008-05-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01565 FAD_binding_4 FAD binding domain
A PF08031 BBE Berberine and berberine like
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.43.10 Alpha Beta 2-Layer Sandwich Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2 3d2dA01
3.30.465.50 Alpha Beta 2-Layer Sandwich Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 3d2dA02
3.40.462.20 Alpha Beta 3-Layer(aba) Sandwich Vanillyl-alcohol Oxidase; Chain A, domain 3 Vanillyl-alcohol Oxidase; Chain A, domain 3 3d2dA03
2BVFA 1E0YA 4BBYA 3W8XA 2W55A 4JAYA 4PWBA 1W1LA 1N62C 3TSJA 5K8EA 3FWAA 2VFVA 4PVKA 4ML8A 3TSHA 3EUB3 4XLOA 4DNSA 5L6FA 2VFRA 2Y4GA 1MBBA 2VFSA 1VAOA 3GSYA 5FXPA 1I19A 4PVHA 5HQXA 4BC9A 1V97A 2QKNA 3S1CA 3HSUA 3NVZB 1HSKA 2Y08A 2WDWA 1E8HA 1FFVC 2MBRA 3NS1B 3AN1A 5ADZA 5AE3A 1AHUA 3PQBA 5I1VA 4OALA 1W1RA 5HMRA 3FW7A 5FXDA 2W3RA 1DIIA 3SR6B 3FW8A 4UD8A 3DQ0A 1WVEA 2Y3SA 3KJMA 3VTEA 5HHZA 3AMZA 3JS8A 1ZXIC 1AHVA 5L6GA 5AE1A 1MBTA 1WVFA 2W54A 1F0XA 2VFTA 3D2JA 1W1JA 4MLAA 1WYGA 1W1OA 1E8GA 4BC7A 1DZNA 4ZOHB 3RJAA 2Q4WA 2BVGA 1T3QC 2GQUA 4PVJA 1N5WC 3POPA 1ZR6A 3AM9A 3S1EA 4PZFA 1N63C 1QLUA 1N61C 3ETRB 1DIQA 1FO4A 1QLTA 4EC3A 1VDVA 3S1FA 2W3SA 1W1KA 3W8ZA 3RJ8A 3S1DA 3PM9A 4O95A 2BVHA 3B9JB 5I1WA 4PWCA 2E3TA 3D2DA 1AHZA 5D79A 3TX1A 2EXRA 2I0KA 3I99A 4BCAA 3BW7A 1FFUC 2VAOA 4PYTA 2Y3RA 2AXRA 1W1SA 1JROA 3D2HA 3NRZB 2GQTA 4JB1A 3W8WA 3C0PA 1FIQB 1W1QA 5AE2A 4PVEA 1W1MA 5FXFA 1N5XA 2QPMA 5FXEA 1E8FA 3FW9A 2VFUA 1UXYA 2Q85A 1N60C 5AWVA 2IPIA
chains in the Genus database with same CATH superfamily
2BVFA 1E0YA 2R8DA 4BBYA 3W8XA 2W55A 5G5HB 4JAYA 4PWBA 2UUUA 1W1LA 1N62C 3TSJA 5K8EA 2OAIA 3FWAA 2VFVA 4PVKA 4ML8A 3TSHA 3EUB3 4XLOA 4DNSA 5L6FA 2VFRA 2Y4GA 1MBBA 2VFSA 1VAOA 3GSYA 5FXPA 1I19A 4PVHA 5HQXA 4BC9A 1V97A 2QKNA 3S1CA 3NVVB 2P13A 3HSUA 3NVZB 1HSKA 2Y08A 2WDWA 1SB3B 3EJBB 1E8HA 1FFVC 2MBRA 3NS1B 3AN1A 5ADZA 1RM6B 5AE3A 1AHUA 3PQBA 5I1VA 4OALA 1W1RA 5HMRA 3FW7A 5FXDA 2W3RA 2PLSA 1DIIA 2YVSA 3SR6B 3FW8A 4UD8A 4HG0A 3DQ0A 1WVEA 2Y3SA 2RK5A 3KJMA 3VTEA 5HHZA 3AMZA 3JS8A 1ZXIC 1AHVA 5L6GA 5AE1A 1MBTA 1WVFA 2W54A 1F0XA 2VFTA 3D2JA 1W1JA 4MLAA 1WYGA 1W1OA 1E8GA 4BC7A 1DZNA 4ZOHB 3RJAA 2Q4WA 2BVGA 1T3QC 2GQUA 4PVJA 3DEDA 1N5WC 3POPA 1ZR6A 3AM9A 3S1EA 4PZFA 1N63C 1QLUA 1N61C 3ETRB 1DIQA 1FO4A 1QLTA 4EC3A 1VDVA 3S1FA 2W3SA 1W1KA 3W8ZA 3RJ8A 3S1DA 3PM9A 2P3HA 3EJEB 4O95A 2BVHA 3B9JB 5I1WA 4PWCA 2E3TA 3D2DA 5G5GB 1AHZA 5D79A 3TX1A 2EXRA 2I0KA 3EJDB 3I99A 4BCAA 3BW7A 1FFUC 2VAOA 4PYTA 2Y3RA 2AXRA 1JRPA 3LLBA 1W1SA 3NVWB 2P4PA 1JROA 2O3GA 2NQWA 3D2HA 3NRZB 2GQTA 4JB1A 3W8WA 3C0PA 3LAEA 3HRDC 2PLIA 1FIQB 1W1QA 5AE2A 3NVYB 4PVEA 1W1MA 5FXFA 2R2ZA 1N5XA 2QPMA 5FXEA 1E8FA 3FW9A 2VFUA 2UUVA 1UXYA 2Q85A 1N60C 5AWVA 2IPIA
chains in the Genus database with same CATH topology
2BVFA 1E0YA 2R8DA 4BBYA 3W8XA 2W55A 5G5HB 4JAYA 4PWBA 2UUUA 1W1LA 1N62C 3TSJA 5K8EA 2OAIA 3FWAA 2VFVA 4PVKA 4ML8A 3TSHA 3EUB3 4XLOA 4DNSA 5L6FA 2VFRA 2Y4GA 1MBBA 2VFSA 1VAOA 3GSYA 5FXPA 1I19A 4PVHA 5HQXA 4BC9A 1V97A 2QKNA 3S1CA 3HSUA 2P13A 3NVVB 3NVZB 1HSKA 2Y08A 2WDWA 1SB3B 1E8HA 1FFVC 2MBRA 3NS1B 3AN1A 5ADZA 1RM6B 5AE3A 1AHUA 3PQBA 5I1VA 4OALA 1W1RA 5HMRA 3FW7A 5FXDA 2W3RA 2PLSA 1DIIA 2YVSA 3SR6B 3FW8A 4UD8A 4HG0A 3DQ0A 1WVEA 2Y3SA 2RK5A 3KJMA 3VTEA 5HHZA 3AMZA 3JS8A 1ZXIC 1AHVA 5L6GA 5AE1A 1MBTA 1WVFA 2W54A 1F0XA 2VFTA 3D2JA 1W1JA 4MLAA 1WYGA 1W1OA 1E8GA 4BC7A 1DZNA 4ZOHB 3RJAA 2Q4WA 2BVGA 1T3QC 2GQUA 4PVJA 3DEDA 1N5WC 3POPA 1ZR6A 3AM9A 3S1EA 4PZFA 1N63C 1QLUA 1N61C 3ETRB 1DIQA 1FO4A 1QLTA 4EC3A 1VDVA 3S1FA 2W3SA 1W1KA 3W8ZA 3RJ8A 3S1DA 3PM9A 2P3HA 4O95A 2BVHA 3B9JB 5I1WA 4PWCA 2E3TA 3D2DA 5G5GB 1AHZA 5D79A 3TX1A 2EXRA 2I0KA 3I99A 4BCAA 3BW7A 1FFUC 2VAOA 4PYTA 2Y3RA 2AXRA 1JRPA 3LLBA 1W1SA 2P4PA 3NVWB 1JROA 2O3GA 2NQWA 3D2HA 3NRZB 2GQTA 4JB1A 3W8WA 3C0PA 3LAEA 3HRDC 2PLIA 1FIQB 1W1QA 5AE2A 3NVYB 4PVEA 1W1MA 5FXFA 2R2ZA 1N5XA 2QPMA 5FXEA 1E8FA 3FW9A 2VFUA 2UUVA 1UXYA 2Q85A 1N60C 5AWVA 2IPIA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2BVF A;  1E0Y A;  4BBY A;  3W8X A;  2W55 A;  4JAY A;  4PWB A;  1W1L A;  1N62 C;  3TSJ A;  5K8E A;  3FWA A;  2VFV A;  4PVK A;  4ML8 A;  3TSH A;  3EUB 3;  4XLO A;  4DNS A;  5L6F A;  2VFR A;  2Y4G A;  1MBB A;  2VFS A;  1VAO A;  3GSY A;  5FXP A;  1I19 A;  4PVH A;  5HQX A;  4BC9 A;  1V97 A;  2QKN A;  3S1C A;  3HSU A;  3NVZ B;  1HSK A;  2Y08 A;  2WDW A;  1E8H A;  1FFV C;  2MBR A;  3NS1 B;  3AN1 A;  5ADZ A;  5AE3 A;  1AHU A;  3PQB A;  5I1V A;  4OAL A;  1W1R A;  5HMR A;  3FW7 A;  5FXD A;  2W3R A;  1DII A;  3SR6 B;  3FW8 A;  4UD8 A;  3DQ0 A;  1WVE A;  2Y3S A;  3KJM A;  3VTE A;  5HHZ A;  3AMZ A;  3JS8 A;  1ZXI C;  1AHV A;  5L6G A;  5AE1 A;  1MBT A;  1WVF A;  2W54 A;  1F0X A;  2VFT A;  3D2J A;  1W1J A;  4MLA A;  1WYG A;  1W1O A;  1E8G A;  4BC7 A;  1DZN A;  4ZOH B;  3RJA A;  2Q4W A;  2BVG A;  1T3Q C;  2GQU A;  4PVJ A;  1N5W C;  3POP A;  1ZR6 A;  3AM9 A;  3S1E A;  4PZF A;  1N63 C;  1QLU A;  1N61 C;  3ETR B;  1DIQ A;  1FO4 A;  1QLT A;  4EC3 A;  1VDV A;  3S1F A;  2W3S A;  1W1K A;  3W8Z A;  3RJ8 A;  3S1D A;  3PM9 A;  4O95 A;  2BVH A;  3B9J B;  5I1W A;  4PWC A;  2E3T A;  3D2D A;  1AHZ A;  5D79 A;  3TX1 A;  2EXR A;  2I0K A;  3I99 A;  4BCA A;  3BW7 A;  1FFU C;  2VAO A;  4PYT A;  2Y3R A;  2AXR A;  1W1S A;  1JRO A;  3D2H A;  3NRZ B;  2GQT A;  4JB1 A;  3W8W A;  3C0P A;  1FIQ B;  1W1Q A;  5AE2 A;  4PVE A;  1W1M A;  5FXF A;  1N5X A;  2QPM A;  5FXE A;  1E8F A;  3FW9 A;  2VFU A;  1UXY A;  2Q85 A;  1N60 C;  5AWV A;  2IPI A; 
#chains in the Genus database with same CATH topology
 2BVF A;  1E0Y A;  2R8D A;  4BBY A;  3W8X A;  2W55 A;  5G5H B;  4JAY A;  4PWB A;  2UUU A;  1W1L A;  1N62 C;  3TSJ A;  5K8E A;  2OAI A;  3FWA A;  2VFV A;  4PVK A;  4ML8 A;  3TSH A;  3EUB 3;  4XLO A;  4DNS A;  5L6F A;  2VFR A;  2Y4G A;  1MBB A;  2VFS A;  1VAO A;  3GSY A;  5FXP A;  1I19 A;  4PVH A;  5HQX A;  4BC9 A;  1V97 A;  2QKN A;  3S1C A;  3NVV B;  2P13 A;  3HSU A;  3NVZ B;  1HSK A;  2Y08 A;  2WDW A;  1SB3 B;  3EJB B;  1E8H A;  1FFV C;  2MBR A;  3NS1 B;  3AN1 A;  5ADZ A;  1RM6 B;  5AE3 A;  1AHU A;  3PQB A;  5I1V A;  4OAL A;  1W1R A;  5HMR A;  3FW7 A;  5FXD A;  2W3R A;  2PLS A;  1DII A;  2YVS A;  3SR6 B;  3FW8 A;  4UD8 A;  4HG0 A;  3DQ0 A;  1WVE A;  2Y3S A;  2RK5 A;  3KJM A;  3VTE A;  5HHZ A;  3AMZ A;  3JS8 A;  1ZXI C;  1AHV A;  5L6G A;  5AE1 A;  1MBT A;  1WVF A;  2W54 A;  1F0X A;  2VFT A;  3D2J A;  1W1J A;  4MLA A;  1WYG A;  1W1O A;  1E8G A;  4BC7 A;  1DZN A;  4ZOH B;  3RJA A;  2Q4W A;  2BVG A;  1T3Q C;  2GQU A;  4PVJ A;  3DED A;  1N5W C;  3POP A;  1ZR6 A;  3AM9 A;  3S1E A;  4PZF A;  1N63 C;  1QLU A;  1N61 C;  3ETR B;  1DIQ A;  1FO4 A;  1QLT A;  4EC3 A;  1VDV A;  3S1F A;  2W3S A;  1W1K A;  3W8Z A;  3RJ8 A;  3S1D A;  3PM9 A;  2P3H A;  3EJE B;  4O95 A;  2BVH A;  3B9J B;  5I1W A;  4PWC A;  2E3T A;  3D2D A;  5G5G B;  1AHZ A;  5D79 A;  3TX1 A;  2EXR A;  2I0K A;  3EJD B;  3I99 A;  4BCA A;  3BW7 A;  1FFU C;  2VAO A;  4PYT A;  2Y3R A;  2AXR A;  1JRP A;  3LLB A;  1W1S A;  3NVW B;  2P4P A;  1JRO A;  2O3G A;  2NQW A;  3D2H A;  3NRZ B;  2GQT A;  4JB1 A;  3W8W A;  3C0P A;  3LAE A;  3HRD C;  2PLI A;  1FIQ B;  1W1Q A;  5AE2 A;  3NVY B;  4PVE A;  1W1M A;  5FXF A;  2R2Z A;  1N5X A;  2QPM A;  5FXE A;  1E8F A;  3FW9 A;  2VFU A;  2UUV A;  1UXY A;  2Q85 A;  1N60 C;  5AWV A;  2IPI A; 
#chains in the Genus database with same CATH homology
 2BVF A;  1E0Y A;  2R8D A;  4BBY A;  3W8X A;  2W55 A;  5G5H B;  4JAY A;  4PWB A;  2UUU A;  1W1L A;  1N62 C;  3TSJ A;  5K8E A;  2OAI A;  3FWA A;  2VFV A;  4PVK A;  4ML8 A;  3TSH A;  3EUB 3;  4XLO A;  4DNS A;  5L6F A;  2VFR A;  2Y4G A;  1MBB A;  2VFS A;  1VAO A;  3GSY A;  5FXP A;  1I19 A;  4PVH A;  5HQX A;  4BC9 A;  1V97 A;  2QKN A;  3S1C A;  3HSU A;  2P13 A;  3NVV B;  3NVZ B;  1HSK A;  2Y08 A;  2WDW A;  1SB3 B;  1E8H A;  1FFV C;  2MBR A;  3NS1 B;  3AN1 A;  5ADZ A;  1RM6 B;  5AE3 A;  1AHU A;  3PQB A;  5I1V A;  4OAL A;  1W1R A;  5HMR A;  3FW7 A;  5FXD A;  2W3R A;  2PLS A;  1DII A;  2YVS A;  3SR6 B;  3FW8 A;  4UD8 A;  4HG0 A;  3DQ0 A;  1WVE A;  2Y3S A;  2RK5 A;  3KJM A;  3VTE A;  5HHZ A;  3AMZ A;  3JS8 A;  1ZXI C;  1AHV A;  5L6G A;  5AE1 A;  1MBT A;  1WVF A;  2W54 A;  1F0X A;  2VFT A;  3D2J A;  1W1J A;  4MLA A;  1WYG A;  1W1O A;  1E8G A;  4BC7 A;  1DZN A;  4ZOH B;  3RJA A;  2Q4W A;  2BVG A;  1T3Q C;  2GQU A;  4PVJ A;  3DED A;  1N5W C;  3POP A;  1ZR6 A;  3AM9 A;  3S1E A;  4PZF A;  1N63 C;  1QLU A;  1N61 C;  3ETR B;  1DIQ A;  1FO4 A;  1QLT A;  4EC3 A;  1VDV A;  3S1F A;  2W3S A;  1W1K A;  3W8Z A;  3RJ8 A;  3S1D A;  3PM9 A;  2P3H A;  4O95 A;  2BVH A;  3B9J B;  5I1W A;  4PWC A;  2E3T A;  3D2D A;  5G5G B;  1AHZ A;  5D79 A;  3TX1 A;  2EXR A;  2I0K A;  3I99 A;  4BCA A;  3BW7 A;  1FFU C;  2VAO A;  4PYT A;  2Y3R A;  2AXR A;  1JRP A;  3LLB A;  1W1S A;  2P4P A;  3NVW B;  1JRO A;  2O3G A;  2NQW A;  3D2H A;  3NRZ B;  2GQT A;  4JB1 A;  3W8W A;  3C0P A;  3LAE A;  3HRD C;  2PLI A;  1FIQ B;  1W1Q A;  5AE2 A;  3NVY B;  4PVE A;  1W1M A;  5FXF A;  2R2Z A;  1N5X A;  2QPM A;  5FXE A;  1E8F A;  3FW9 A;  2VFU A;  2UUV A;  1UXY A;  2Q85 A;  1N60 C;  5AWV A;  2IPI A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...