1DBG | Genus

Total Genus 180

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	180
sequence length	481
structure length	481
Chain Sequence	QVVASNETLYQVVKEVKPGGLVQIADGTYKDVQLIVSNSGKSGLPITIKALNPGKVFFTGDAKVELRGEHLILEGIWFKDGNRAIQAWKSHGPGLVAIYGSYNRITACVFDCFDEANSAYITTSLTEDGKVPQHCRIDHCSFTDKITFDQVINLNNTARAIKDGSVGGPGMYHRVDHCFFSNPQKPGNAGGGIRIGYYRNDIGRCLVDSNLFMRQDSEAEIITSKSQENVYYGNTYLNCQGTMNFRHGDHQVAINNFYIGNDQRFGYGGMFVWGSRHVIACNYFELSETIKSRGNAALYLNPGAMASEHALAFDMLIANNAFINVNGYAIHFNPLDERRKEYCAANRLKFETPHQLMLKGNLFFKDKPYVYPFFKDDYFIAGKNSWTGNVALGVEKGIPVNISANRSAYKPVKIKDIQPIEGIALDLNALISKGITGKPLSWDEVRPYWLKEMPGTYALTARLSADRAAKFKAVIKRNKEH

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

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Viewer cachePut cache://localLOAD_/file/5cfaf1f46017d4cc5809c66c/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfaf1f46017d4cc5809c66c/pdb.gz

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

molecule tags	Lyase
publication title	Crystal structure of chondroitinase B from Flavobacterium heparinum and its complex with a disaccharide product at 1.7 A resolution. pubmed doi rcsb
molecule keywords	CHONDROITINASE B
total genus	180
structure length	481
sequence length	481
ec nomenclature	ec 4.2.2.19: Chondroitin B lyase.
pdb deposition date	1999-11-02

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF14592	Chondroitinas_B	Chondroitinase B

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.160.20.10	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Single-stranded right-handed beta-helix, Pectin lyase-like	1dbgA00

5AMVA 1H80A 1RWRA 4MR0A 4YZAA 2X6YA 1PLUA 4XN3A 4XMYA 4OJLA 3WWGA 1IDJA 1OGOX 2Z8GA 1O8EA 1O8JA 1QJVA 1KCCA 4W8QA 1O88A 4XONA 1JRGA 3VMWA 4Z05A 4XLCA 3ZSCA 2QXZA 4YEJA 5C1CA 1NHCA 4C2LA 1IB4A 1PXZA 3B90A 4YZXA 3SUCA 1DBOA 1O8DA 4YZ0A 2O0VA 2QX3A 3EQNA 4XKVA 3GQ7A 3KRGA 2VBKA 4I84A 3B4NA 4PMHA 3VMVA 2VBEA 2O17A 2VJIA 2EWEA 2NTPA 4XLAA 4XLFA 3UW0A 1O8IA 1PE9A 2O04A 1O8LA 4OZZA 2NSPA 1QCXA 1JTAA 2ODLA 2INUA 2NT6A 1EE6A 1OFLA 4OZYA 2X6XA 4XR6A 3VSUA 1DBGA 2PECA 1AIRA 1HG8A 1RMGA 1XG2A 4YELA 1IA5A 2NT9A 2O1DA 3JURA 1KCDA 4XORA 3VSTA 4W8RA 4XN0A 2UVFA 4XLEA 3VSVA 4XLHA 2VJJA 4XL9A 1O8KA 4W8TA 2NTBA 2NSTA 4AVZA 1CZFA 2QY1A 2UVEA 1OGMX 2X3HA 4OJ6A 4U49A 3GRHA 4W8SA 4URRA 4XOPA 4Z03A 4HWVA 1O8HA 4OJ5A 3GQAA 4OJPA 1BN8A 1O8MA 3ZPPA 2O0WA 2IQ7A 2PYHA 1O8FA 1O8GA 1BHEA 2X6WA 2NTQA 2PYGA 2INVA 4XQFA 1OFMA 4XNFA 1GQ8A 2VBMA 3FY3A 3GQ9A 4NK6A 1X0CA 2BSPA 4YZQA 3LMWA 1OOCA 4OJOA 1WMRA 3GQ8A 1RU4A 2NZMA 4MXNA 4XKWA 5C1EA 4EW9A 3T9GA 3B8YA 2X85A 4NK8A 3EQOA 1IDKA 1VBLA 4U4BA 4XOTA 4XM3A 4Z06A 1K5CA 1KTWA
chains in the Genus database with same CATH superfamily

5AMVA 1KQ5A 3LJYA 1H80A 1RWRA 4YEIA 2J8IA 3PETA 4MR0A 3SZEA 4YZAA 2X6YA 1PLUA 4XN3A 4XMYA 3BH6B 4OJLA 3WWGA 1LLZA 1QRCA 1IDJA 1OGOX 2Z8GA 1O8EA 1O8JA 2V5IA 5JLVC 1QJVA 2BM4A 4W8QA 1O88A 1KCCA 4XONA 2BM6A 1JRGA 3VMWA 4Z05A 4OPWA 4XLCA 1LM1A 1QA1A 3ZSCA 2QXZA 2XT4A 4YEJA 5C1CA 4OM9A 2VFMA 4C2LA 1IB4A 1PXZA 3B90A 1NHCA 4YZXA 2W7ZA 3SUCA 5JMCB 1DBOA 1O8DA 4YZ0A 1QA3A 2O0VA 2QX3A 2BM5A 3EQNA 2O6WA 4YDTA 3AK5A 1TYVA 2J8KA 4XKVA 2QZAA 3GQ7A 2XTWA 2VBKA 3KRGA 4I84A 3B4NA 1QRBA 4PMHA 2YUHA 3VMVA 2VBEA 2O17A 2VJIA 2EWEA 2NTPA 4XLAA 4XLFA 2F3LA 1O8IA 1PE9A 2O04A 3UW0A 1O8LA 1WXRA 3LYCA 2NSPA 4OZZA 1QCXA 1JTAA 2ODLA 2INUA 3NB2A 4YFOA 2NT6A 1EE6A 1OFLA 4OZYA 1TSPA 1LLWA 2X6XA 4XR6A 3VSUA 1DBGA 2VFPA 1QA2A 5DNSA 3TH0A 1TYWA 1AIRA 2PECA 1EA0A 2VFNA 3SY2A 1HG8A 1RMGA 1XG2A 1K8FA 3H09A 4YELA 1IA5A 2NT9A 2O1DA 3SQVA 3JURA 3PSZA 1KCDA 3N6ZA 4XORA 3VSTA 1TYUA 4W8RA 4XN0A 2UVFA 2IOUG 4XLEA 4XLHA 3VSVA 2VJJA 4XL9A 1O8KA 1OFEA 4W8TA 3RIQA 3NAWA 1L1IA 2NTBA 2NSTA 1EZGA 4AVZA 1CZFA 2QY1A 1CLWA 1OGMX 2UVEA 2X3HA 4OJ6A 4U49A 3GRHA 4W8SA 3SYJA 4URRA 4XOPA 4Z03A 4HWVA 2QYUA 1K4ZA 1O8HA 3GQAA 1HF2A 4OJ5A 4OJPA 1BN8A 1O8MA 3ZPPA 1OFDA 2IQ7A 2O0WA 1DABA 2B0RA 1O8FA 1O8GA 1BHEA 2PYHA 2NTQA 2PYGA 2X6WA 2INVA 3PSSA 4YC5A 4XQFA 1OFMA 2XTXA 3ML3A 4XNFA 1GQ8A 2VBMA 3FY3A 3GQ9A 4NK6A 4V02C 1X0CA 2BSPA 4YZQA 3LMWA 1TYXA 2XC1A 1OOCA 4OJOA 1WMRA 2BX6A 3GQ8A 4JRAC 2XT2A 1RU4A 3JX8A 2NZMA 4MXNA 2VFOA 3P4GA 4XKWA 5C1EA 4EW9A 2BM7A 3N90A 3T9GA 2VFQA 2X85A 3B8YA 4NK8A 3EQOA 1IDKA 2XTYA 4YCQA 1VBLA 4U4BA 2G0YA 4KH3A 4XOTA 4XM3A 1QQ1A 4Z06A 1K5CA 3BH7B 1KTWA 3DU1X
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 5AMV A;  1H80 A;  1RWR A;  4MR0 A;  4YZA A;  2X6Y A;  1PLU A;  4XN3 A;  4XMY A;  4OJL A;  3WWG A;  1IDJ A;  1OGO X;  2Z8G A;  1O8E A;  1O8J A;  1QJV A;  1KCC A;  4W8Q A;  1O88 A;  4XON A;  1JRG A;  3VMW A;  4Z05 A;  4XLC A;  3ZSC A;  2QXZ A;  4YEJ A;  5C1C A;  1NHC A;  4C2L A;  1IB4 A;  1PXZ A;  3B90 A;  4YZX A;  3SUC A;  1DBO A;  1O8D A;  4YZ0 A;  2O0V A;  2QX3 A;  3EQN A;  4XKV A;  3GQ7 A;  3KRG A;  2VBK A;  4I84 A;  3B4N A;  4PMH A;  3VMV A;  2VBE A;  2O17 A;  2VJI A;  2EWE A;  2NTP A;  4XLA A;  4XLF A;  3UW0 A;  1O8I A;  1PE9 A;  2O04 A;  1O8L A;  4OZZ A;  2NSP A;  1QCX A;  1JTA A;  2ODL A;  2INU A;  2NT6 A;  1EE6 A;  1OFL A;  4OZY A;  2X6X A;  4XR6 A;  3VSU A;  1DBG A;  2PEC A;  1AIR A;  1HG8 A;  1RMG A;  1XG2 A;  4YEL A;  1IA5 A;  2NT9 A;  2O1D A;  3JUR A;  1KCD A;  4XOR A;  3VST A;  4W8R A;  4XN0 A;  2UVF A;  4XLE A;  3VSV A;  4XLH A;  2VJJ A;  4XL9 A;  1O8K A;  4W8T A;  2NTB A;  2NST A;  4AVZ A;  1CZF A;  2QY1 A;  2UVE A;  1OGM X;  2X3H A;  4OJ6 A;  4U49 A;  3GRH A;  4W8S A;  4URR A;  4XOP A;  4Z03 A;  4HWV A;  1O8H A;  4OJ5 A;  3GQA A;  4OJP A;  1BN8 A;  1O8M A;  3ZPP A;  2O0W A;  2IQ7 A;  2PYH A;  1O8F A;  1O8G A;  1BHE A;  2X6W A;  2NTQ A;  2PYG A;  2INV A;  4XQF A;  1OFM A;  4XNF A;  1GQ8 A;  2VBM A;  3FY3 A;  3GQ9 A;  4NK6 A;  1X0C A;  2BSP A;  4YZQ A;  3LMW A;  1OOC A;  4OJO A;  1WMR A;  3GQ8 A;  1RU4 A;  2NZM A;  4MXN A;  4XKW A;  5C1E A;  4EW9 A;  3T9G A;  3B8Y A;  2X85 A;  4NK8 A;  3EQO A;  1IDK A;  1VBL A;  4U4B A;  4XOT A;  4XM3 A;  4Z06 A;  1K5C A;  1KTW A; 
#chains in the Genus database with same CATH topology
 5AMV A;  1KQ5 A;  3LJY A;  1H80 A;  1RWR A;  4YEI A;  2J8I A;  3PET A;  4MR0 A;  3SZE A;  4YZA A;  2X6Y A;  1PLU A;  4XN3 A;  4XMY A;  3BH6 B;  4OJL A;  3WWG A;  1LLZ A;  1QRC A;  1IDJ A;  1OGO X;  2Z8G A;  1O8E A;  1O8J A;  2V5I A;  5JLV C;  1QJV A;  2BM4 A;  4W8Q A;  1O88 A;  1KCC A;  4XON A;  2BM6 A;  1JRG A;  3VMW A;  4Z05 A;  4OPW A;  4XLC A;  1LM1 A;  1QA1 A;  3ZSC A;  2QXZ A;  2XT4 A;  4YEJ A;  5C1C A;  4OM9 A;  2VFM A;  4C2L A;  1IB4 A;  1PXZ A;  3B90 A;  1NHC A;  4YZX A;  2W7Z A;  3SUC A;  5JMC B;  1DBO A;  1O8D A;  4YZ0 A;  1QA3 A;  2O0V A;  2QX3 A;  2BM5 A;  3EQN A;  2O6W A;  4YDT A;  3AK5 A;  1TYV A;  2J8K A;  4XKV A;  2QZA A;  3GQ7 A;  2XTW A;  2VBK A;  3KRG A;  4I84 A;  3B4N A;  1QRB A;  4PMH A;  2YUH A;  3VMV A;  2VBE A;  2O17 A;  2VJI A;  2EWE A;  2NTP A;  4XLA A;  4XLF A;  2F3L A;  1O8I A;  1PE9 A;  2O04 A;  3UW0 A;  1O8L A;  1WXR A;  3LYC A;  2NSP A;  4OZZ A;  1QCX A;  1JTA A;  2ODL A;  2INU A;  3NB2 A;  4YFO A;  2NT6 A;  1EE6 A;  1OFL A;  4OZY A;  1TSP A;  1LLW A;  2X6X A;  4XR6 A;  3VSU A;  1DBG A;  2VFP A;  1QA2 A;  5DNS A;  3TH0 A;  1TYW A;  1AIR A;  2PEC A;  1EA0 A;  2VFN A;  3SY2 A;  1HG8 A;  1RMG A;  1XG2 A;  1K8F A;  3H09 A;  4YEL A;  1IA5 A;  2NT9 A;  2O1D A;  3SQV A;  3JUR A;  3PSZ A;  1KCD A;  3N6Z A;  4XOR A;  3VST A;  1TYU A;  4W8R A;  4XN0 A;  2UVF A;  2IOU G;  4XLE A;  4XLH A;  3VSV A;  2VJJ A;  4XL9 A;  1O8K A;  1OFE A;  4W8T A;  3RIQ A;  3NAW A;  1L1I A;  2NTB A;  2NST A;  1EZG A;  4AVZ A;  1CZF A;  2QY1 A;  1CLW A;  1OGM X;  2UVE A;  2X3H A;  4OJ6 A;  4U49 A;  3GRH A;  4W8S A;  3SYJ A;  4URR A;  4XOP A;  4Z03 A;  4HWV A;  2QYU A;  1K4Z A;  1O8H A;  3GQA A;  1HF2 A;  4OJ5 A;  4OJP A;  1BN8 A;  1O8M A;  3ZPP A;  1OFD A;  2IQ7 A;  2O0W A;  1DAB A;  2B0R A;  1O8F A;  1O8G A;  1BHE A;  2PYH A;  2NTQ A;  2PYG A;  2X6W A;  2INV A;  3PSS A;  4YC5 A;  4XQF A;  1OFM A;  2XTX A;  3ML3 A;  4XNF A;  1GQ8 A;  2VBM A;  3FY3 A;  3GQ9 A;  4NK6 A;  4V02 C;  1X0C A;  2BSP A;  4YZQ A;  3LMW A;  1TYX A;  2XC1 A;  1OOC A;  4OJO A;  1WMR A;  2BX6 A;  3GQ8 A;  4JRA C;  2XT2 A;  1RU4 A;  3JX8 A;  2NZM A;  4MXN A;  2VFO A;  3P4G A;  4XKW A;  5C1E A;  4EW9 A;  2BM7 A;  3N90 A;  3T9G A;  2VFQ A;  2X85 A;  3B8Y A;  4NK8 A;  3EQO A;  1IDK A;  2XTY A;  4YCQ A;  1VBL A;  4U4B A;  2G0Y A;  4KH3 A;  4XOT A;  4XM3 A;  1QQ1 A;  4Z06 A;  1K5C A;  3BH7 B;  1KTW A;  3DU1 X; 
#chains in the Genus database with same CATH homology
 5AMV A;  1H80 A;  1RWR A;  4MR0 A;  4YZA A;  2X6Y A;  1PLU A;  4XN3 A;  4XMY A;  4OJL A;  3WWG A;  1IDJ A;  1OGO X;  2Z8G A;  1O8E A;  1O8J A;  1QJV A;  1KCC A;  4W8Q A;  1O88 A;  4XON A;  1JRG A;  3VMW A;  4Z05 A;  4XLC A;  3ZSC A;  2QXZ A;  4YEJ A;  5C1C A;  1NHC A;  4C2L A;  1IB4 A;  1PXZ A;  3B90 A;  4YZX A;  3SUC A;  1DBO A;  1O8D A;  4YZ0 A;  2O0V A;  2QX3 A;  3EQN A;  4XKV A;  3GQ7 A;  3KRG A;  2VBK A;  4I84 A;  3B4N A;  4PMH A;  3VMV A;  2VBE A;  2O17 A;  2VJI A;  2EWE A;  2NTP A;  4XLA A;  4XLF A;  3UW0 A;  1O8I A;  1PE9 A;  2O04 A;  1O8L A;  4OZZ A;  2NSP A;  1QCX A;  1JTA A;  2ODL A;  2INU A;  2NT6 A;  1EE6 A;  1OFL A;  4OZY A;  2X6X A;  4XR6 A;  3VSU A;  1DBG A;  2PEC A;  1AIR A;  1HG8 A;  1RMG A;  1XG2 A;  4YEL A;  1IA5 A;  2NT9 A;  2O1D A;  3JUR A;  1KCD A;  4XOR A;  3VST A;  4W8R A;  4XN0 A;  2UVF A;  4XLE A;  3VSV A;  4XLH A;  2VJJ A;  4XL9 A;  1O8K A;  4W8T A;  2NTB A;  2NST A;  4AVZ A;  1CZF A;  2QY1 A;  2UVE A;  1OGM X;  2X3H A;  4OJ6 A;  4U49 A;  3GRH A;  4W8S A;  4URR A;  4XOP A;  4Z03 A;  4HWV A;  1O8H A;  4OJ5 A;  3GQA A;  4OJP A;  1BN8 A;  1O8M A;  3ZPP A;  2O0W A;  2IQ7 A;  2PYH A;  1O8F A;  1O8G A;  1BHE A;  2X6W A;  2NTQ A;  2PYG A;  2INV A;  4XQF A;  1OFM A;  4XNF A;  1GQ8 A;  2VBM A;  3FY3 A;  3GQ9 A;  4NK6 A;  1X0C A;  2BSP A;  4YZQ A;  3LMW A;  1OOC A;  4OJO A;  1WMR A;  3GQ8 A;  1RU4 A;  2NZM A;  4MXN A;  4XKW A;  5C1E A;  4EW9 A;  3T9G A;  3B8Y A;  2X85 A;  4NK8 A;  3EQO A;  1IDK A;  1VBL A;  4U4B A;  4XOT A;  4XM3 A;  4Z06 A;  1K5C A;  1KTW 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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1DBGA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations