2VBK | Genus

Total Genus 188

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	188
sequence length	511
structure length	511
Chain Sequence	QFGPDLIEQLAQSGKYSQDNTKGDAMIGVKQPLPKAVLRTQHDKNKEAISILDFGVIDDGVTDNYQAIQNAIDAVASLPSGGELFIPASNQAVGYIVGSTLLIPGGVNIRGVGKASQLRAKSGLTGSVLRLSYDSDTIGRYLRNIRVTGNNTCNGIDTNITAEDSVIRQVYGWVFDNVMVNEVETAYLMQGLWHSKFIACQAGTCRVGLHFLGQCVSVSVSSCHFSRGNYSADESFGIRIQPQTYAWSSEAVRSEAIILDSETMCIGFKNAVYVHDCLDLHMEQLDLDYCGSTGVVIENVNGGFSFSNSWIAADADGTEQFTGIYFRTPTSTQSHKIVSGVHINTANKNTAANNQSIAIEQSAIFVFVSGCTLTGDEWAVNIVDINECVSFDKCIFNKPLRYLRSGGVSVTDCYLAGITEVQKPEGRYNTYRGCSGVPSVNGIINVPVAVGATSGSAAIPNPGNLTYRVRSLFGDPASSGDKVSVSGVTINVTRPSPVGVALPSMVEYLAI

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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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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	Viral protein
source organism	Enterobacteria phage sf6
publication title	An intersubunit active site between supercoiled parallel beta helices in the trimeric tailspike endorhamnosidase of Shigella flexneri Phage Sf6. pubmed doi rcsb
molecule keywords	TAILSPIKE-PROTEIN
total genus	188
structure length	511
sequence length	511
ec nomenclature
pdb deposition date	2007-09-14

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF12708	Pectate_lyase_3	Pectate lyase superfamily protein

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	2vbkA00

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations