3D2DA

Structure of berberine bridge enzyme in complex with (s)-reticuline
Total Genus 162
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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
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
4BCAA 1FFVC 3VTEA 1N5WC 3W8XA 5AE2A 3AM9A 1E0YA 1WVFA 3D2HA 5HQXA 4O95A 4PWCA 3EUB3 1W1QA 3S1FA 1N61C 1FFUC 3FW7A 5L6FA 1N60C 2WDWA 4BBYA 2IPIA 2BVGA 2AXRA 2I0KA 4PVKA 1VDVA 1MBBA 3RJAA 2Q85A 1ZR6A 4BC9A 3KJMA 1E8HA 5ADZA 3PM9A 3B9JB 1DZNA 2EXRA 2VFRA 5AWVA 2VFVA 1N62C 3AMZA 4PYTA 3RJ8A 3D2DA 4ML8A 4PWBA 1VAOA 4JAYA 5FXDA 1W1LA 5AE1A 1AHZA 2Y4GA 4PVHA 1N63C 2W54A 3POPA 3BW7A 5L6GA 1AHVA 2W55A 2VFTA 1E8GA 3C0PA 4PVEA 4BC7A 4PVJA 3TX1A 3NRZB 5HMRA 2GQUA 2W3RA 1W1OA 4JB1A 5AE3A 3GSYA 3W8WA 3NS1B 2E3TA 1N5XA 1W1KA 1ZXIC 2Q4WA 5FXPA 1W1RA 2QKNA 4XLOA 3FW8A 5D79A 3TSJA 1I19A 5K8EA 3ETRB 5HHZA 1W1JA 1HSKA 4PZFA 5I1VA 3DQ0A 3S1DA 3PQBA 1F0XA 2VFUA 5I1WA 3FW9A 2MBRA 1FIQB 2BVFA 4EC3A 2Y3SA 1W1MA 3AN1A 4MLAA 3S1CA 2QPMA 1MBTA 3NVZB 3JS8A 1V97A 3D2JA 2W3SA 1AHUA 2GQTA 1DIIA 1T3QC 4DNSA 5FXFA 1QLUA 3I99A 5FXEA 1JROA 1W1SA 2BVHA 1QLTA 2VFSA 3TSHA 2Y08A 1UXYA 3W8ZA 3HSUA 1WYGA 1E8FA 4UD8A 1WVEA 1FO4A 1DIQA 3FWAA 4OALA 3SR6B 2Y3RA 3S1EA 4ZOHB 2VAOA
chains in the Genus database with same CATH superfamily
3NVVB 4BCAA 1FFVC 3VTEA 1N5WC 3W8XA 5AE2A 3AM9A 1E0YA 1WVFA 3D2HA 5HQXA 4O95A 1JRPA 1RM6B 4PWCA 3EUB3 1W1QA 3S1FA 1N61C 1FFUC 3FW7A 3NVYB 5L6FA 1N60C 2WDWA 4BBYA 2YVSA 2IPIA 2BVGA 2AXRA 2I0KA 2UUUA 4PVKA 1VDVA 1MBBA 3RJAA 2Q85A 1ZR6A 4BC9A 3KJMA 2PLIA 1E8HA 5ADZA 3PM9A 3B9JB 1DZNA 2EXRA 2VFRA 3EJBB 5AWVA 2VFVA 1N62C 3AMZA 4PYTA 3RJ8A 3D2DA 2PLSA 4ML8A 4PWBA 1VAOA 3NVWB 4JAYA 4HG0A 5FXDA 1W1LA 3LAEA 5AE1A 3EJDB 2OAIA 1AHZA 2Y4GA 4PVHA 1N63C 2W54A 2P3HA 3DEDA 3POPA 3BW7A 5L6GA 1AHVA 2W55A 2VFTA 1E8GA 3C0PA 4PVEA 4BC7A 4PVJA 3TX1A 2R8DA 3NRZB 5HMRA 2GQUA 2W3RA 1W1OA 4JB1A 5AE3A 3GSYA 3W8WA 3NS1B 2E3TA 1N5XA 1W1KA 1ZXIC 2Q4WA 5FXPA 1W1RA 2QKNA 4XLOA 2O3GA 3FW8A 5D79A 3TSJA 1I19A 3HRDC 5K8EA 3ETRB 5HHZA 1W1JA 1HSKA 4PZFA 5I1VA 3DQ0A 3S1DA 3PQBA 1F0XA 5G5GB 2VFUA 5I1WA 3FW9A 2MBRA 1FIQB 2NQWA 2BVFA 4EC3A 2Y3SA 1W1MA 3AN1A 4MLAA 3S1CA 2QPMA 2RK5A 1SB3B 3LLBA 1MBTA 3NVZB 3JS8A 1V97A 3D2JA 2W3SA 1AHUA 2GQTA 1DIIA 1T3QC 4DNSA 5FXFA 2P4PA 1QLUA 3I99A 5FXEA 1JROA 2UUVA 2P13A 1W1SA 2BVHA 1QLTA 3EJEB 2VFSA 3TSHA 2Y08A 1UXYA 3W8ZA 3HSUA 1WYGA 1E8FA 2R2ZA 4UD8A 1WVEA 1FO4A 1DIQA 5G5HB 3FWAA 4OALA 3SR6B 2Y3RA 3S1EA 4ZOHB 2VAOA
chains in the Genus database with same CATH topology
3NVVB 4BCAA 1FFVC 3VTEA 1N5WC 3W8XA 5AE2A 3AM9A 1E0YA 1WVFA 3D2HA 5HQXA 4O95A 1JRPA 1RM6B 4PWCA 3EUB3 1W1QA 3S1FA 1N61C 1FFUC 3FW7A 3NVYB 5L6FA 1N60C 2WDWA 4BBYA 2YVSA 2IPIA 2BVGA 2AXRA 2I0KA 2UUUA 4PVKA 1VDVA 1MBBA 3RJAA 2Q85A 1ZR6A 4BC9A 3KJMA 2PLIA 1E8HA 5ADZA 3PM9A 3B9JB 1DZNA 2EXRA 2VFRA 5AWVA 2VFVA 1N62C 3AMZA 4PYTA 3RJ8A 3D2DA 2PLSA 4ML8A 4PWBA 1VAOA 4JAYA 3NVWB 4HG0A 5FXDA 1W1LA 3LAEA 5AE1A 2OAIA 1AHZA 2Y4GA 4PVHA 1N63C 2W54A 2P3HA 3DEDA 3POPA 3BW7A 5L6GA 1AHVA 2W55A 2VFTA 1E8GA 3C0PA 4PVEA 4BC7A 4PVJA 3TX1A 2R8DA 3NRZB 5HMRA 2GQUA 2W3RA 1W1OA 4JB1A 5AE3A 3GSYA 3W8WA 3NS1B 2E3TA 1N5XA 1W1KA 1ZXIC 2Q4WA 5FXPA 1W1RA 2QKNA 4XLOA 2O3GA 3FW8A 5D79A 3TSJA 1I19A 3HRDC 5K8EA 3ETRB 5HHZA 1W1JA 1HSKA 4PZFA 5I1VA 3DQ0A 3S1DA 3PQBA 1F0XA 5G5GB 2VFUA 5I1WA 3FW9A 2MBRA 1FIQB 2NQWA 2BVFA 4EC3A 2Y3SA 1W1MA 3AN1A 4MLAA 3S1CA 2QPMA 2RK5A 1SB3B 3LLBA 1MBTA 3NVZB 3JS8A 1V97A 3D2JA 2W3SA 1AHUA 2GQTA 1DIIA 1T3QC 4DNSA 5FXFA 2P4PA 1QLUA 3I99A 5FXEA 1JROA 2UUVA 2P13A 1W1SA 2BVHA 1QLTA 2VFSA 3TSHA 2Y08A 1UXYA 3W8ZA 3HSUA 1WYGA 1E8FA 2R2ZA 4UD8A 1WVEA 1FO4A 1DIQA 5G5HB 3FWAA 4OALA 3SR6B 2Y3RA 3S1EA 4ZOHB 2VAOA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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