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.

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


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