5AMVA

Structural insights into the loss of catalytic competence in pectate lyase at low ph
Total Genus 159
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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
159
sequence length
399
structure length
397
Chain Sequence
ADLGHQTLGSNDGWGAYSTGTTGGSKASSSNVYTVSNRNQLVSALGKETNTTPKIIYIKGTIDMNVDDNLKPLGLNDYKDPEYDLDKYLKAYDPSTWGKKEPSGTQEEARARSKNQKARVMVDIPANTTIVGSGTNAKVVGGNFQIKSDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDHDKSSIFGSSDSKTSDDGKLKITLHHNRYKNIVQRAPRVRFGQVHVYNNYYEGSTSSSSYPFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTISVFSGGTALYDSGTLLNGTQINASAANGLSSSVGWTPSLHGSIDASANVKNVINQAGAGKLN
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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

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

molecule keywords PECTATE LYASE
publication title Structural Insights Into the Loss of Catalytic Competence in Pectate Lyase Activity at Low Ph.
pubmed doi rcsb
source organism Bacillus subtilis
molecule tags Lyase
total genus 159
structure length 397
sequence length 399
ec nomenclature ec 4.2.2.2: Pectate lyase.
pdb deposition date 2015-09-02

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00544 Pec_lyase_C Pectate lyase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.160.20.10 Mainly Beta 3 Solenoid Pectate Lyase C-like Single-stranded right-handed beta-helix, Pectin lyase-like 5amvA00
4Z03A 4NK6A 4YZXA 2UVEA 1AIRA 1OGMX 1IDKA 2X6WA 4NK8A 2NT6A 2VBMA 4XKWA 2VJJA 1RU4A 4OJLA 4XONA 3VMVA 1IA5A 4XM3A 3UW0A 4XMYA 2BSPA 5C1EA 3GQ7A 4XN3A 4XLCA 2NTQA 3SUCA 2NTBA 4W8TA 3B4NA 1CZFA 3LMWA 4XOTA 3EQNA 4XLHA 2ODLA 3B90A 1HG8A 2X85A 1IB4A 3JURA 3KRGA 3FY3A 5AMVA 1BHEA 2QX3A 1KCCA 1O8EA 4XLAA 4YEJA 3WWGA 4OJ5A 1O88A 1JRGA 2PECA 1VBLA 3GRHA 2VBEA 1DBOA 2NTPA 4I84A 4XKVA 2NSTA 2O0VA 1K5CA 1QCXA 4W8QA 4OZZA 2NSPA 4OJ6A 2X6XA 4URRA 4W8RA 2VBKA 1KTWA 1O8HA 2X6YA 1JTAA 3ZPPA 1RMGA 4Z06A 5C1CA 2QY1A 1X0CA 2Z8GA 4XLEA 2NT9A 2O17A 1KCDA 1OOCA 1O8MA 3VSTA 4W8SA 3VSVA 1PE9A 3EQOA 1O8GA 4XL9A 1O8JA 4U4BA 1DBGA 1O8KA 1OFLA 4C2LA 2EWEA 1GQ8A 3ZSCA 4MR0A 4XOPA 1WMRA 4YZQA 3T9GA 1H80A 2QXZA 2PYHA 4PMHA 3GQ8A 2VJIA 2O04A 4XR6A 3GQ9A 4EW9A 1RWRA 1O8DA 1XG2A 1EE6A 3VSUA 1BN8A 4OJPA 4XORA 1OGOX 4YZ0A 4MXNA 4XN0A 4XQFA 1O8IA 3B8YA 2X3HA 1OFMA 2INUA 1PLUA 4YZAA 4OZYA 1IDJA 4AVZA 2NZMA 2IQ7A 4HWVA 1QJVA 1NHCA 1O8FA 4OJOA 3GQAA 2O0WA 2O1DA 1PXZA 4Z05A 1O8LA 3VMWA 4U49A 2PYGA 4XLFA 2UVFA 2INVA 4XNFA 4YELA
chains in the Genus database with same CATH superfamily
4YC5A 4Z03A 3NB2A 4NK6A 4YFOA 4YZXA 2UVEA 3N6ZA 1AIRA 1OGMX 1IDKA 2X6WA 4NK8A 2NT6A 2VBMA 4XKWA 4YCQA 2VJJA 1RU4A 4OJLA 2XTWA 4XONA 3VMVA 1IA5A 4XM3A 3ML3A 3UW0A 1QA1A 3P4GA 4XMYA 2G0YA 2BSPA 5C1EA 3SYJA 3GQ7A 4XN3A 4XLCA 2NTQA 2XT4A 3SUCA 2NTBA 2J8IA 3PETA 4W8TA 3LYCA 3B4NA 1CZFA 1LLZA 2F3LA 3DU1X 3LMWA 4XOTA 3TH0A 3EQNA 4KH3A 4XLHA 1TYVA 2ODLA 1QQ1A 1HG8A 2BM7A 3B90A 2X85A 1IB4A 3JURA 3KRGA 1EA0A 3FY3A 5AMVA 1BHEA 2QX3A 3LJYA 3SY2A 3N90A 1KCCA 2W7ZA 1O8EA 2BM6A 4XLAA 1QA2A 1TYWA 4YEJA 3WWGA 4OJ5A 1O88A 1JRGA 2PECA 1VBLA 3BH6B 2VBEA 3GRHA 1TYUA 1DBOA 1QRBA 2NTPA 3H09A 3SZEA 4I84A 1K8FA 4XKVA 2NSTA 1OFEA 2O0VA 1K5CA 1QCXA 1WXRA 4W8QA 5JMCB 4OZZA 4OM9A 3BH7B 2XTXA 2YUHA 1OFDA 2NSPA 4OJ6A 2X6XA 4URRA 4W8RA 1KTWA 1O8HA 2VBKA 2X6YA 1JTAA 3ZPPA 1RMGA 4Z06A 1KQ5A 5C1CA 2QY1A 1EZGA 1X0CA 2Z8GA 2IOUG 4XLEA 2BM5A 2B0RA 2NT9A 1CLWA 1OOCA 2O17A 1O8MA 2VFNA 3VSTA 4W8SA 3VSVA 1PE9A 3EQOA 3PSSA 2QYUA 1O8GA 4OPWA 4XL9A 1O8JA 2XTYA 3JX8A 2O6WA 1DBGA 1O8KA 1OFLA 4U4BA 4C2LA 2VFMA 2VFOA 2EWEA 1GQ8A 3ZSCA 4MR0A 2XC1A 4XOPA 1WMRA 4YZQA 4V02C 3T9GA 1H80A 2BX6A 2QXZA 1LLWA 1TYXA 2PYHA 4PMHA 3GQ8A 3NAWA 3AK5A 1TSPA 2O04A 2VJIA 3GQ9A 4XR6A 4YDTA 4EW9A 4JRAC 1K4ZA 1RWRA 1O8DA 1XG2A 1EE6A 3VSUA 1BN8A 2XT2A 4OJPA 4XORA 3SQVA 1OGOX 4YZ0A 1KCDA 4MXNA 4XN0A 1QRCA 2V5IA 4XQFA 5JLVC 1O8IA 3B8YA 5DNSA 2QZAA 1QA3A 2X3HA 1OFMA 2INUA 1PLUA 4YZAA 4OZYA 1IDJA 4AVZA 1DABA 2NZMA 2IQ7A 4HWVA 4YEIA 1QJVA 2BM4A 1NHCA 1O8FA 4OJOA 3GQAA 2O0WA 2O1DA 1PXZA 4Z05A 1LM1A 2J8KA 1L1IA 2VFPA 1O8LA 3VMWA 4U49A 2PYGA 4XLFA 2UVFA 3PSZA 2INVA 3RIQA 4XNFA 1HF2A 2VFQA 4YELA
chains in the Genus database with same CATH topology
4Z03A 4NK6A 4YZXA 2UVEA 1AIRA 1OGMX 1IDKA 2X6WA 4NK8A 2NT6A 2VBMA 4XKWA 2VJJA 1RU4A 4OJLA 4XONA 3VMVA 1IA5A 4XM3A 3UW0A 4XMYA 2BSPA 5C1EA 3GQ7A 4XN3A 4XLCA 2NTQA 3SUCA 2NTBA 4W8TA 3B4NA 1CZFA 3LMWA 4XOTA 3EQNA 4XLHA 2ODLA 3B90A 1HG8A 2X85A 1IB4A 3JURA 3KRGA 3FY3A 5AMVA 1BHEA 2QX3A 1KCCA 1O8EA 4XLAA 4YEJA 3WWGA 4OJ5A 1O88A 1JRGA 2PECA 1VBLA 3GRHA 2VBEA 1DBOA 2NTPA 4I84A 4XKVA 2NSTA 2O0VA 1K5CA 1QCXA 4W8QA 4OZZA 2NSPA 4OJ6A 2X6XA 4URRA 4W8RA 2VBKA 1KTWA 1O8HA 2X6YA 1JTAA 3ZPPA 1RMGA 4Z06A 5C1CA 2QY1A 1X0CA 2Z8GA 4XLEA 2NT9A 2O17A 1KCDA 1OOCA 1O8MA 3VSTA 4W8SA 3VSVA 1PE9A 3EQOA 1O8GA 4XL9A 1O8JA 4U4BA 1DBGA 1O8KA 1OFLA 4C2LA 2EWEA 1GQ8A 3ZSCA 4MR0A 4XOPA 1WMRA 4YZQA 3T9GA 1H80A 2QXZA 2PYHA 4PMHA 3GQ8A 2VJIA 2O04A 4XR6A 3GQ9A 4EW9A 1RWRA 1O8DA 1XG2A 1EE6A 3VSUA 1BN8A 4OJPA 4XORA 1OGOX 4YZ0A 4MXNA 4XN0A 4XQFA 1O8IA 3B8YA 2X3HA 1OFMA 2INUA 1PLUA 4YZAA 4OZYA 1IDJA 4AVZA 2NZMA 2IQ7A 4HWVA 1QJVA 1NHCA 1O8FA 4OJOA 3GQAA 2O0WA 2O1DA 1PXZA 4Z05A 1O8LA 3VMWA 4U49A 2PYGA 4XLFA 2UVFA 2INVA 4XNFA 4YELA
chains in the Genus database with same CATH homology


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