3D2JA

Structure of berberine bridge enzyme from eschscholzia californica, tetragonal crystal form
Total Genus 165
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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
165
sequence length
502
structure length
502
Chain Sequence
AGNDLLSCLTFNGVRNHTVFSADSDSDFNRFLHLSIQNPLFQNSLISKPSAIILPGSKEELSNTIRCIRKGSWTIRLRSGGHSYEGLSYTSDTPFILIDLMNLNRVSIDLESETAWVESGSTLGELYYAITESSSKLGFTAGWCPTVGTGGHISGGGFGMMSRKYGLAADNVVDAILIDANGAILDRQAMGEDVFWAIRGGGGGVWGAIYAWKIKLLPVPEKVTVFRVTKNVAIDEATSLLHKWQFVAEELEEDFTLSVLGGADEKQVWLTMLGFHFGLKTVAKSTFDLLFPELGLVEEDYLEMSWGESFAYLAGLETVSQLNNRFLKFDERAFKTKVDLTKEPLPSKAFYGLLERLSKEPNGFIALNGFGGQMSKISSDFTPFPHRSGTRLMVEYIVAWNQSEQKKKTEFLDWLEKVYEFMKPFVSKNPRLGYVNHIDLDLGGIDWGNKTVVNNAIEISRSWGESYFLSNYERLIRAKTLIDPNNVFNHPQSIPPMANFDY
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 165
structure length 502
sequence length 502
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 3d2jA01
3.30.465.50 Alpha Beta 2-Layer Sandwich Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 3d2jA02
3.40.462.20 Alpha Beta 3-Layer(aba) Sandwich Vanillyl-alcohol Oxidase; Chain A, domain 3 Vanillyl-alcohol Oxidase; Chain A, domain 3 3d2jA03
3W8WA 5AWVA 1N62C 3C0PA 1QLTA 2Y3RA 1E8FA 4OALA 3HSUA 1FIQB 2W54A 3TSHA 2VFRA 2WDWA 1W1SA 4BBYA 5FXFA 5ADZA 3FW7A 3NRZB 4PVKA 4BC9A 1N61C 3D2HA 5L6GA 1WYGA 5D79A 1HSKA 1FFUC 3GSYA 3NVZB 2Q4WA 1AHZA 4ZOHB 3EUB3 3RJ8A 2W3RA 3VTEA 3AM9A 1W1MA 1FFVC 4O95A 4JAYA 2Y4GA 2I0KA 1W1LA 3S1FA 5I1VA 1I19A 2Y08A 3RJAA 1N60C 3KJMA 2Q85A 1T3QC 2VAOA 1QLUA 5K8EA 3DQ0A 2IPIA 1UXYA 1VDVA 5AE1A 4PVHA 1W1RA 3NS1B 1W1KA 1WVFA 1MBBA 3AMZA 4PWCA 1N5XA 2Y3SA 4DNSA 1JROA 3ETRB 1W1JA 1F0XA 5FXDA 1N5WC 2VFUA 5FXEA 4ML8A 1MBTA 4PYTA 1E8HA 3D2DA 2EXRA 3S1CA 3FW8A 1VAOA 2GQTA 4BC7A 4XLOA 2E3TA 3TSJA 3PQBA 3TX1A 1DIIA 5L6FA 2MBRA 4PWBA 3PM9A 1V97A 3SR6B 1DZNA 4MLAA 4JB1A 2VFTA 3FW9A 1ZXIC 1W1QA 2QKNA 1E8GA 3W8XA 3D2JA 1N63C 1W1OA 3AN1A 5HHZA 3BW7A 3B9JB 5AE2A 1WVEA 2W3SA 3POPA 5FXPA 3S1EA 2BVFA 1ZR6A 2QPMA 5HQXA 4PZFA 4PVJA 5AE3A 2W55A 1FO4A 1DIQA 1E0YA 1AHUA 4EC3A 3S1DA 2VFVA 2BVHA 5I1WA 4UD8A 3I99A 1AHVA 3W8ZA 3FWAA 2VFSA 3JS8A 4PVEA 5HMRA 2AXRA 2GQUA 4BCAA 2BVGA
chains in the Genus database with same CATH superfamily
3W8WA 5AWVA 1N62C 3C0PA 1QLTA 3NVVB 2PLSA 2Y3RA 1E8FA 4OALA 3HSUA 1FIQB 2W54A 3TSHA 2VFRA 2P4PA 2WDWA 1W1SA 4BBYA 5FXFA 5ADZA 3FW7A 3NRZB 4PVKA 4BC9A 4HG0A 2P13A 1N61C 3D2HA 5G5GB 5L6GA 1WYGA 5D79A 1HSKA 1FFUC 3GSYA 3NVZB 2Q4WA 1AHZA 4ZOHB 3EUB3 3RJ8A 2W3RA 3EJBB 3VTEA 3LLBA 3AM9A 1W1MA 1FFVC 1RM6B 1SB3B 4O95A 4JAYA 2Y4GA 2I0KA 1W1LA 3S1FA 5I1VA 1I19A 2Y08A 3RJAA 2P3HA 1N60C 3KJMA 2Q85A 1T3QC 2VAOA 1QLUA 5K8EA 3DQ0A 2IPIA 1UXYA 1VDVA 5AE1A 4PVHA 1W1RA 3NS1B 1W1KA 3DEDA 1WVFA 1MBBA 3NVWB 3AMZA 4PWCA 1N5XA 2Y3SA 4DNSA 1JROA 3ETRB 1W1JA 1F0XA 5FXDA 2RK5A 1N5WC 2VFUA 5FXEA 4ML8A 1MBTA 3EJEB 4PYTA 1JRPA 1E8HA 3D2DA 2EXRA 3S1CA 3FW8A 1VAOA 2GQTA 4BC7A 4XLOA 2E3TA 3TSJA 3PQBA 3TX1A 1DIIA 5L6FA 3LAEA 2MBRA 2PLIA 5G5HB 4PWBA 3PM9A 1V97A 3SR6B 1DZNA 4MLAA 4JB1A 2VFTA 3FW9A 1ZXIC 1W1QA 2R8DA 2QKNA 1E8GA 3W8XA 3D2JA 1N63C 1W1OA 3AN1A 5HHZA 3BW7A 3NVYB 3B9JB 5AE2A 1WVEA 2W3SA 2NQWA 3POPA 5FXPA 3S1EA 2BVFA 3EJDB 1ZR6A 2QPMA 2UUVA 5HQXA 2OAIA 4PZFA 4PVJA 5AE3A 2W55A 1FO4A 1DIQA 1E0YA 2R2ZA 1AHUA 4EC3A 3S1DA 3HRDC 2VFVA 2BVHA 5I1WA 4UD8A 3I99A 1AHVA 3W8ZA 3FWAA 2VFSA 3JS8A 4PVEA 2O3GA 2UUUA 5HMRA 2YVSA 2AXRA 2GQUA 4BCAA 2BVGA
chains in the Genus database with same CATH topology
3W8WA 5AWVA 1N62C 3C0PA 1QLTA 3NVVB 2PLSA 2Y3RA 1E8FA 4OALA 3HSUA 1FIQB 2W54A 3TSHA 2VFRA 2P4PA 2WDWA 1W1SA 4BBYA 5FXFA 5ADZA 3FW7A 3NRZB 4PVKA 4BC9A 4HG0A 2P13A 1N61C 3D2HA 5G5GB 5L6GA 1WYGA 5D79A 1HSKA 1FFUC 3GSYA 3NVZB 2Q4WA 1AHZA 4ZOHB 3EUB3 3RJ8A 2W3RA 3VTEA 3LLBA 3AM9A 1W1MA 1FFVC 1RM6B 1SB3B 4O95A 4JAYA 2Y4GA 2I0KA 1W1LA 3S1FA 5I1VA 1I19A 2Y08A 3RJAA 2P3HA 1N60C 3KJMA 2Q85A 1T3QC 2VAOA 1QLUA 5K8EA 3DQ0A 2IPIA 1UXYA 1VDVA 5AE1A 4PVHA 1W1RA 3NS1B 1W1KA 3DEDA 1WVFA 1MBBA 3NVWB 3AMZA 4PWCA 1N5XA 2Y3SA 4DNSA 1JROA 3ETRB 1W1JA 1F0XA 5FXDA 2RK5A 1N5WC 2VFUA 5FXEA 4ML8A 1MBTA 1JRPA 4PYTA 1E8HA 3D2DA 2EXRA 3S1CA 3FW8A 1VAOA 2GQTA 4BC7A 4XLOA 2E3TA 3TSJA 3PQBA 3TX1A 1DIIA 5L6FA 3LAEA 2MBRA 2PLIA 5G5HB 4PWBA 3PM9A 1V97A 3SR6B 1DZNA 4MLAA 4JB1A 2VFTA 3FW9A 1ZXIC 1W1QA 2R8DA 2QKNA 1E8GA 3W8XA 3D2JA 1N63C 1W1OA 3AN1A 5HHZA 3BW7A 3NVYB 3B9JB 5AE2A 1WVEA 2W3SA 2NQWA 3POPA 5FXPA 3S1EA 2BVFA 1ZR6A 2QPMA 2UUVA 5HQXA 2OAIA 4PZFA 4PVJA 5AE3A 2W55A 1FO4A 1DIQA 1E0YA 2R2ZA 1AHUA 4EC3A 3S1DA 3HRDC 2VFVA 2BVHA 5I1WA 4UD8A 3I99A 1AHVA 3W8ZA 3FWAA 2VFSA 3JS8A 4PVEA 2O3GA 2UUUA 5HMRA 2YVSA 2AXRA 2GQUA 4BCAA 2BVGA
chains in the Genus database with same CATH homology


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