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.

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


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