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


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