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 tags Oxidoreductase
molecule keywords berberine bridge-forming enzyme
publication title A concerted mechanism for berberine bridge enzyme
pubmed doi rcsb
source organism Eschscholzia californica
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
2BVGA 5HMRA 1FFUC 2W54A 1VAOA 5L6FA 3TX1A 4ML8A 3POPA 3S1FA 3D2DA 4XLOA 3PQBA 4PYTA 1AHUA 5FXFA 2Q85A 5L6GA 3FW9A 4O95A 2Y4GA 5I1VA 1UXYA 1DZNA 3HSUA 2EXRA 1N63C 5K8EA 2MBRA 2Q4WA 3DQ0A 3AMZA 1WVEA 1N61C 3PM9A 2IPIA 1QLTA 3TSJA 4PVJA 2VFRA 2VFTA 1E8FA 2GQTA 5I1WA 1N62C 1W1KA 3W8XA 4BBYA 1E0YA 1W1RA 2W3RA 3NRZB 2BVFA 1W1OA 1ZXIC 3S1EA 4BC7A 4BCAA 1MBTA 4PVEA 1W1JA 4JB1A 3W8WA 3BW7A 4BC9A 4EC3A 2VAOA 4PWCA 1FO4A 4OALA 4PWBA 3AN1A 1E8GA 2QPMA 3FWAA 4MLAA 3EUB3 2BVHA 2QKNA 5D79A 3FW8A 1DIIA 4PVHA 2VFUA 1FIQB 4PVKA 2E3TA 5ADZA 1N60C 2W55A 1ZR6A 5FXDA 3B9JB 2W3SA 1AHZA 2GQUA 3W8ZA 3AM9A 3NVZB 2Y08A 1DIQA 2I0KA 1JROA 3JS8A 3S1CA 1W1SA 4DNSA 1W1QA 5AE2A 4JAYA 1WYGA 3D2HA 1V97A 2Y3SA 3NS1B 1W1LA 3GSYA 3FW7A 4UD8A 1WVFA 2VFVA 2AXRA 5FXEA 3RJ8A 3I99A 2VFSA 1HSKA 1QLUA 3SR6B 3S1DA 3ETRB 3RJAA 1F0XA 3KJMA 1MBBA 1T3QC 1N5WC 1N5XA 1AHVA 4PZFA 3D2JA 1E8HA 5HQXA 3TSHA 5FXPA 1W1MA 1I19A 1VDVA 5AE1A 5AWVA 4ZOHB 1FFVC 3VTEA 5AE3A 2Y3RA 5HHZA 3C0PA 2WDWA
chains in the Genus database with same CATH superfamily
2BVGA 5HMRA 1FFUC 2W54A 1VAOA 5L6FA 3TX1A 4ML8A 3POPA 3S1FA 3D2DA 2PLIA 4XLOA 3PQBA 4PYTA 1AHUA 5FXFA 2Q85A 5L6GA 3FW9A 4O95A 3LAEA 2Y4GA 5I1VA 2RK5A 1UXYA 1DZNA 3HSUA 2EXRA 1N63C 5K8EA 2MBRA 2Q4WA 3DQ0A 3AMZA 1WVEA 1N61C 3NVVB 3PM9A 2IPIA 2R2ZA 1QLTA 3TSJA 2R8DA 4PVJA 1JRPA 2VFRA 2VFTA 3EJEB 1E8FA 2UUUA 2GQTA 5I1WA 1N62C 1W1KA 3W8XA 4BBYA 1E0YA 1W1RA 2W3RA 3NRZB 2BVFA 1W1OA 1ZXIC 3S1EA 4BC7A 4BCAA 1MBTA 4PVEA 1W1JA 4JB1A 3HRDC 3W8WA 3BW7A 4BC9A 4EC3A 3NVYB 2VAOA 4PWCA 1FO4A 5G5HB 4OALA 4PWBA 3AN1A 1E8GA 2QPMA 3FWAA 4MLAA 3EUB3 2WDWA 2BVHA 2QKNA 5D79A 3FW8A 1DIIA 4PVHA 2VFUA 1FIQB 4PVKA 2UUVA 2E3TA 5ADZA 3LLBA 1N60C 2W55A 1ZR6A 5FXDA 3B9JB 2W3SA 1AHZA 2GQUA 3W8ZA 3AM9A 3NVZB 2Y08A 1DIQA 2I0KA 1JROA 3JS8A 2OAIA 2YVSA 3S1CA 1W1SA 4DNSA 4HG0A 1W1QA 5AE2A 3DEDA 4JAYA 1WYGA 3D2HA 3EJDB 1V97A 2Y3SA 2P4PA 3NS1B 1W1LA 3GSYA 3FW7A 4UD8A 1RM6B 1WVFA 2VFVA 2NQWA 2AXRA 5FXEA 3RJ8A 2P13A 3I99A 2VFSA 2O3GA 1HSKA 1QLUA 3SR6B 3S1DA 3ETRB 3RJAA 5G5GB 1F0XA 3KJMA 1MBBA 1T3QC 1N5WC 1N5XA 1AHVA 3NVWB 4PZFA 3D2JA 1E8HA 5HQXA 1SB3B 3TSHA 5FXPA 1W1MA 1I19A 1VDVA 3EJBB 5AE1A 5AWVA 4ZOHB 2P3HA 1FFVC 3VTEA 5AE3A 2Y3RA 5HHZA 3C0PA 2PLSA
chains in the Genus database with same CATH topology
2BVGA 5HMRA 1FFUC 2W54A 1VAOA 5L6FA 3TX1A 4ML8A 3POPA 3S1FA 3D2DA 2PLIA 4XLOA 3PQBA 4PYTA 1AHUA 5FXFA 2Q85A 5L6GA 3FW9A 4O95A 3LAEA 2Y4GA 5I1VA 2RK5A 1UXYA 1DZNA 3HSUA 2EXRA 1N63C 5K8EA 2MBRA 2Q4WA 3DQ0A 3AMZA 1WVEA 1N61C 3NVVB 3PM9A 2IPIA 2R2ZA 1QLTA 3TSJA 2R8DA 4PVJA 1JRPA 2VFRA 2VFTA 1E8FA 2UUUA 2GQTA 5I1WA 1N62C 1W1KA 3W8XA 4BBYA 1E0YA 1W1RA 2W3RA 3NRZB 2BVFA 1W1OA 1ZXIC 3S1EA 4BC7A 4BCAA 1MBTA 4PVEA 1W1JA 4JB1A 3HRDC 3W8WA 3BW7A 4BC9A 4EC3A 3NVYB 2VAOA 4PWCA 1FO4A 5G5HB 4OALA 4PWBA 3AN1A 1E8GA 2QPMA 3FWAA 4MLAA 3EUB3 2WDWA 2BVHA 2QKNA 5D79A 3FW8A 1DIIA 4PVHA 2VFUA 1FIQB 4PVKA 2UUVA 2E3TA 5ADZA 3LLBA 1N60C 2W55A 1ZR6A 5FXDA 3B9JB 2W3SA 1AHZA 2GQUA 3W8ZA 3AM9A 3NVZB 2Y08A 1DIQA 2I0KA 1JROA 3JS8A 2OAIA 2YVSA 3S1CA 1W1SA 4DNSA 4HG0A 1W1QA 5AE2A 3DEDA 4JAYA 1WYGA 3D2HA 1V97A 2Y3SA 2P4PA 3NS1B 1W1LA 3GSYA 3FW7A 4UD8A 1RM6B 1WVFA 2VFVA 2NQWA 2AXRA 5FXEA 3RJ8A 2P13A 3I99A 2VFSA 2O3GA 1HSKA 1QLUA 3SR6B 3S1DA 3ETRB 3RJAA 5G5GB 1F0XA 3KJMA 1MBBA 1T3QC 1N5WC 1N5XA 1AHVA 3NVWB 4PZFA 3D2JA 1E8HA 5HQXA 1SB3B 3TSHA 5FXPA 1W1MA 1I19A 1VDVA 5AE1A 5AWVA 4ZOHB 2P3HA 1FFVC 3VTEA 5AE3A 2Y3RA 5HHZA 3C0PA 2PLSA
chains in the Genus database with same CATH homology


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