1WQ9A

Crystal structure of vr-1, a vegf-f from a snake venom
Total Genus 17
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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
17
sequence length
96
structure length
96
Chain Sequence
EVRPFLDVYQRSACQTRETLVSILQEHPDEISDIFRPSCVAVLRCSGCCTDESMKCTPVGKHTADIQIMRMNPRTHSSKMEVMKFMEHTACECRPA
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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.

Chord Diagram
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molecule tags Toxin
molecule keywords Vascular endothelial growth factor
publication title Crystal structures of novel vascular endothelial growth factors (VEGF) from snake venoms: insight into selective VEGF binding to kinase insert domain-containing receptor but not to fms-like tyrosine kinase-1.
pubmed doi rcsb
total genus 17
structure length 96
sequence length 96
ec nomenclature
pdb deposition date 2004-09-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00341 PDGF PDGF/VEGF domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.10.90.10 Mainly Beta Ribbon Cystine Knot Cytokines, subunit B Cystine-knot cytokines 1wq9A00
1E9JA 2IFGE 2ARVA 3HH2A 2B0UA 3V6BA 4HQUA 2P6AA 1WQ9B 2QR0C 1TZIV 2ARPA 1REWA 1HCNB 3FUBB 3QTKA 3JVFA 2FJHV 4EAXA 4XPJA 1LXIA 2VPFA 2X1XE 1NYUB 3EVSB 5E4GA 1WQ8A 2X1WA 1LX5A 1HCFA 4YCGC 1MJVA 4KZNA 1WAQA 4HR9A 1TGKA 5BQEA 4GLSE 1FLTV 5F3BC 3B4VA 2QJAA 3RJRA 1ES7A 5BQ8B 2GNNA 2ASKA 1ZKZA 5HHCA 2BHKA 4ZFFC 5BQCA 4MPLA 4N1DA 4WPBA 1XWDA 1HRPA 4EDXV 1CZ8V 4AY9A 1VPPV 4EDWV 5HHXA 4MQWA 2QCWA 3BUKA 2FJGV 5HK5E 3QB4A 1BNDB 1M4UA 3SEKB 1QFWA 1FL7A 1KLAA 5JZ7A 5BQBA 1QFWB 2XV7A 1B8KA 4LXSJ 2R52A 2C7WA 3EO1C 1XWDB 4KV5A 3MJGA 1HRPB 2QJBA 4YCIC 3BMPA 4QAFC 3V2AA 4QCIC 4AY9B 4EC7A 5BQ8D 2KD3A 3E07A 2GYZA 4MQWB 4KXZA 5HHDA 2QCQA 1BETA 3BDYV 5FV1V 4LXRJ 1B98A 5HI3A 1FL7B 1M4UL 4FAOA 1KATW 1BJ1V 4GLNE 4BV4L 2VWEA 1S4YB 1HD4A 1KLCA 1TZHV 5BQEB 1SGFB 1RV6V 4X1JA 2GOOA 4UI2B 4ZBNA 4HSAA 1B8MA 5HI5A 4QHUC 1REUA 1VPFA 5HK5A 1AGQA 1MKGA 5HHVA 1SG1A 4MIDA 1FZVA 3KFDA 4UI1A 1TGJA 5BPUA 2GH0C 1KTZA 2QJ9A 3S1KV 3MJKA 1MKKA 1QTYR 2R53A 3P9WA 1NYSB 5BQ8A 3S1BV 1B8MB 4UHZA 2TGIA 1AOCA 4UI0A 2GYRA 5AEJA 1TFGA 2H64A 2H62A 1JPYA 2VXSA 1BTGA 1WQ9A 2V5EB 5F3HI 1PDGA 3IJ2A 1HCNA 2PJYA 5HI4A 1NT3A 2XACA 1BNDA 1BMPA 5FV2V 4EFVA 1DZ7A 3BK3A 4HQXA 4UHYA 1WWWV
chains in the Genus database with same CATH superfamily
1E9JA 2IFGE 2ARVA 3HH2A 2B0UA 3V6BA 4HQUA 2P6AA 1WQ9B 2QR0C 1TZIV 2ARPA 1REWA 1HCNB 3FUBB 3QTKA 3JVFA 2FJHV 4EAXA 4XPJA 1LXIA 2VPFA 2X1XE 1NYUB 3EVSB 5E4GA 1WQ8A 2X1WA 1LX5A 1HCFA 4YCGC 1MJVA 4KZNA 1WAQA 4HR9A 1TGKA 5BQEA 4GLSE 1FLTV 5F3BC 3B4VA 2QJAA 3RJRA 1ES7A 5BQ8B 2GNNA 2ASKA 1ZKZA 5HHCA 2BHKA 4ZFFC 5BQCA 4MPLA 4N1DA 4WPBA 1XWDA 1HRPA 4EDXV 1CZ8V 4AY9A 1VPPV 4EDWV 5HHXA 4MQWA 2QCWA 3BUKA 2FJGV 5HK5E 3QB4A 1BNDB 1M4UA 3SEKB 1QFWA 1FL7A 1KLAA 5JZ7A 5BQBA 1QFWB 2XV7A 1B8KA 4LXSJ 2R52A 2C7WA 3EO1C 1XWDB 4KV5A 3MJGA 1HRPB 2QJBA 4YCIC 3BMPA 4QAFC 3V2AA 4QCIC 4AY9B 4EC7A 5BQ8D 2KD3A 3E07A 2GYZA 4MQWB 4KXZA 5HHDA 2QCQA 1BETA 3BDYV 5FV1V 4LXRJ 1B98A 5HI3A 1FL7B 1M4UL 4FAOA 1KATW 1BJ1V 4GLNE 4BV4L 2VWEA 1S4YB 1HD4A 1KLCA 1TZHV 5BQEB 1SGFB 1RV6V 4X1JA 2GOOA 4UI2B 4ZBNA 4HSAA 1B8MA 5HI5A 4QHUC 1REUA 1VPFA 5HK5A 1AGQA 1MKGA 5HHVA 1SG1A 4MIDA 1FZVA 3KFDA 4UI1A 1TGJA 5BPUA 2GH0C 1KTZA 2QJ9A 3S1KV 3MJKA 1MKKA 1QTYR 2R53A 3P9WA 1NYSB 5BQ8A 3S1BV 1B8MB 4UHZA 2TGIA 1AOCA 4UI0A 2GYRA 5AEJA 1TFGA 2H64A 2H62A 1JPYA 2VXSA 1BTGA 1WQ9A 2V5EB 5F3HI 1PDGA 3IJ2A 1HCNA 2PJYA 5HI4A 1NT3A 2XACA 1BNDA 1BMPA 5FV2V 4EFVA 1DZ7A 3BK3A 4HQXA 4UHYA 1WWWV
chains in the Genus database with same CATH topology
1E9JA 2IFGE 2ARVA 3HH2A 2B0UA 3V6BA 4HQUA 2P6AA 1WQ9B 2QR0C 1TZIV 2ARPA 1REWA 1HCNB 3FUBB 3QTKA 3JVFA 2FJHV 4EAXA 4XPJA 1LXIA 2VPFA 2X1XE 1NYUB 3EVSB 5E4GA 1WQ8A 2X1WA 1LX5A 1HCFA 4YCGC 1MJVA 4KZNA 1WAQA 4HR9A 1TGKA 5BQEA 4GLSE 1FLTV 5F3BC 3B4VA 2QJAA 3RJRA 1ES7A 5BQ8B 2GNNA 2ASKA 1ZKZA 5HHCA 2BHKA 4ZFFC 5BQCA 4MPLA 4N1DA 4WPBA 1XWDA 1HRPA 4EDXV 1CZ8V 4AY9A 1VPPV 4EDWV 5HHXA 4MQWA 2QCWA 3BUKA 2FJGV 5HK5E 3QB4A 1BNDB 1M4UA 3SEKB 1QFWA 1FL7A 1KLAA 5JZ7A 5BQBA 1QFWB 2XV7A 1B8KA 4LXSJ 2R52A 2C7WA 3EO1C 1XWDB 4KV5A 3MJGA 1HRPB 2QJBA 4YCIC 3BMPA 4QAFC 3V2AA 4QCIC 4AY9B 4EC7A 5BQ8D 2KD3A 3E07A 2GYZA 4MQWB 4KXZA 5HHDA 2QCQA 1BETA 3BDYV 5FV1V 4LXRJ 1B98A 5HI3A 1FL7B 1M4UL 4FAOA 1KATW 1BJ1V 4GLNE 4BV4L 2VWEA 1S4YB 1HD4A 1KLCA 1TZHV 5BQEB 1SGFB 1RV6V 4X1JA 2GOOA 4UI2B 4ZBNA 4HSAA 1B8MA 5HI5A 4QHUC 1REUA 1VPFA 5HK5A 1AGQA 1MKGA 5HHVA 1SG1A 4MIDA 1FZVA 3KFDA 4UI1A 1TGJA 5BPUA 2GH0C 1KTZA 2QJ9A 3S1KV 3MJKA 1MKKA 1QTYR 2R53A 3P9WA 1NYSB 5BQ8A 3S1BV 1B8MB 4UHZA 2TGIA 1AOCA 4UI0A 2GYRA 5AEJA 1TFGA 2H64A 2H62A 1JPYA 2VXSA 1BTGA 1WQ9A 2V5EB 5F3HI 1PDGA 3IJ2A 1HCNA 2PJYA 5HI4A 1NT3A 2XACA 1BNDA 1BMPA 5FV2V 4EFVA 1DZ7A 3BK3A 4HQXA 4UHYA 1WWWV
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1E9J A;  2IFG E;  2ARV A;  3HH2 A;  2B0U A;  3V6B A;  4HQU A;  2P6A A;  1WQ9 B;  2QR0 C;  1TZI V;  2ARP A;  1REW A;  1HCN B;  3FUB B;  3QTK A;  3JVF A;  2FJH V;  4EAX A;  4XPJ A;  1LXI A;  2VPF A;  2X1X E;  1NYU B;  3EVS B;  5E4G A;  1WQ8 A;  2X1W A;  1LX5 A;  1HCF A;  4YCG C;  1MJV A;  4KZN A;  1WAQ A;  4HR9 A;  1TGK A;  5BQE A;  4GLS E;  1FLT V;  5F3B C;  3B4V A;  2QJA A;  3RJR A;  1ES7 A;  5BQ8 B;  2GNN A;  2ASK A;  1ZKZ A;  5HHC A;  2BHK A;  4ZFF C;  5BQC A;  4MPL A;  4N1D A;  4WPB A;  1XWD A;  1HRP A;  4EDX V;  1CZ8 V;  4AY9 A;  1VPP V;  4EDW V;  5HHX A;  4MQW A;  2QCW A;  3BUK A;  2FJG V;  5HK5 E;  3QB4 A;  1BND B;  1M4U A;  3SEK B;  1QFW A;  1FL7 A;  1KLA A;  5JZ7 A;  5BQB A;  1QFW B;  2XV7 A;  1B8K A;  4LXS J;  2R52 A;  2C7W A;  3EO1 C;  1XWD B;  4KV5 A;  3MJG A;  1HRP B;  2QJB A;  4YCI C;  3BMP A;  4QAF C;  3V2A A;  4QCI C;  4AY9 B;  4EC7 A;  5BQ8 D;  2KD3 A;  3E07 A;  2GYZ A;  4MQW B;  4KXZ A;  5HHD A;  2QCQ A;  1BET A;  3BDY V;  5FV1 V;  4LXR J;  1B98 A;  5HI3 A;  1FL7 B;  1M4U L;  4FAO A;  1KAT W;  1BJ1 V;  4GLN E;  4BV4 L;  2VWE A;  1S4Y B;  1HD4 A;  1KLC A;  1TZH V;  5BQE B;  1SGF B;  1RV6 V;  4X1J A;  2GOO A;  4UI2 B;  4ZBN A;  4HSA A;  1B8M A;  5HI5 A;  4QHU C;  1REU A;  1VPF A;  5HK5 A;  1AGQ A;  1MKG A;  5HHV A;  1SG1 A;  4MID A;  1FZV A;  3KFD A;  4UI1 A;  1TGJ A;  5BPU A;  2GH0 C;  1KTZ A;  2QJ9 A;  3S1K V;  3MJK A;  1MKK A;  1QTY R;  2R53 A;  3P9W A;  1NYS B;  5BQ8 A;  3S1B V;  1B8M B;  4UHZ A;  2TGI A;  1AOC A;  4UI0 A;  2GYR A;  5AEJ A;  1TFG A;  2H64 A;  2H62 A;  1JPY A;  2VXS A;  1BTG A;  1WQ9 A;  2V5E B;  5F3H I;  1PDG A;  3IJ2 A;  1HCN A;  2PJY A;  5HI4 A;  1NT3 A;  2XAC A;  1BND A;  1BMP A;  5FV2 V;  4EFV A;  1DZ7 A;  3BK3 A;  4HQX A;  4UHY A;  1WWW V; 
#chains in the Genus database with same CATH topology
 1E9J A;  2IFG E;  2ARV A;  3HH2 A;  2B0U A;  3V6B A;  4HQU A;  2P6A A;  1WQ9 B;  2QR0 C;  1TZI V;  2ARP A;  1REW A;  1HCN B;  3FUB B;  3QTK A;  3JVF A;  2FJH V;  4EAX A;  4XPJ A;  1LXI A;  2VPF A;  2X1X E;  1NYU B;  3EVS B;  5E4G A;  1WQ8 A;  2X1W A;  1LX5 A;  1HCF A;  4YCG C;  1MJV A;  4KZN A;  1WAQ A;  4HR9 A;  1TGK A;  5BQE A;  4GLS E;  1FLT V;  5F3B C;  3B4V A;  2QJA A;  3RJR A;  1ES7 A;  5BQ8 B;  2GNN A;  2ASK A;  1ZKZ A;  5HHC A;  2BHK A;  4ZFF C;  5BQC A;  4MPL A;  4N1D A;  4WPB A;  1XWD A;  1HRP A;  4EDX V;  1CZ8 V;  4AY9 A;  1VPP V;  4EDW V;  5HHX A;  4MQW A;  2QCW A;  3BUK A;  2FJG V;  5HK5 E;  3QB4 A;  1BND B;  1M4U A;  3SEK B;  1QFW A;  1FL7 A;  1KLA A;  5JZ7 A;  5BQB A;  1QFW B;  2XV7 A;  1B8K A;  4LXS J;  2R52 A;  2C7W A;  3EO1 C;  1XWD B;  4KV5 A;  3MJG A;  1HRP B;  2QJB A;  4YCI C;  3BMP A;  4QAF C;  3V2A A;  4QCI C;  4AY9 B;  4EC7 A;  5BQ8 D;  2KD3 A;  3E07 A;  2GYZ A;  4MQW B;  4KXZ A;  5HHD A;  2QCQ A;  1BET A;  3BDY V;  5FV1 V;  4LXR J;  1B98 A;  5HI3 A;  1FL7 B;  1M4U L;  4FAO A;  1KAT W;  1BJ1 V;  4GLN E;  4BV4 L;  2VWE A;  1S4Y B;  1HD4 A;  1KLC A;  1TZH V;  5BQE B;  1SGF B;  1RV6 V;  4X1J A;  2GOO A;  4UI2 B;  4ZBN A;  4HSA A;  1B8M A;  5HI5 A;  4QHU C;  1REU A;  1VPF A;  5HK5 A;  1AGQ A;  1MKG A;  5HHV A;  1SG1 A;  4MID A;  1FZV A;  3KFD A;  4UI1 A;  1TGJ A;  5BPU A;  2GH0 C;  1KTZ A;  2QJ9 A;  3S1K V;  3MJK A;  1MKK A;  1QTY R;  2R53 A;  3P9W A;  1NYS B;  5BQ8 A;  3S1B V;  1B8M B;  4UHZ A;  2TGI A;  1AOC A;  4UI0 A;  2GYR A;  5AEJ A;  1TFG A;  2H64 A;  2H62 A;  1JPY A;  2VXS A;  1BTG A;  1WQ9 A;  2V5E B;  5F3H I;  1PDG A;  3IJ2 A;  1HCN A;  2PJY A;  5HI4 A;  1NT3 A;  2XAC A;  1BND A;  1BMP A;  5FV2 V;  4EFV A;  1DZ7 A;  3BK3 A;  4HQX A;  4UHY A;  1WWW V; 
#chains in the Genus database with same CATH homology
 1E9J A;  2IFG E;  2ARV A;  3HH2 A;  2B0U A;  3V6B A;  4HQU A;  2P6A A;  1WQ9 B;  2QR0 C;  1TZI V;  2ARP A;  1REW A;  1HCN B;  3FUB B;  3QTK A;  3JVF A;  2FJH V;  4EAX A;  4XPJ A;  1LXI A;  2VPF A;  2X1X E;  1NYU B;  3EVS B;  5E4G A;  1WQ8 A;  2X1W A;  1LX5 A;  1HCF A;  4YCG C;  1MJV A;  4KZN A;  1WAQ A;  4HR9 A;  1TGK A;  5BQE A;  4GLS E;  1FLT V;  5F3B C;  3B4V A;  2QJA A;  3RJR A;  1ES7 A;  5BQ8 B;  2GNN A;  2ASK A;  1ZKZ A;  5HHC A;  2BHK A;  4ZFF C;  5BQC A;  4MPL A;  4N1D A;  4WPB A;  1XWD A;  1HRP A;  4EDX V;  1CZ8 V;  4AY9 A;  1VPP V;  4EDW V;  5HHX A;  4MQW A;  2QCW A;  3BUK A;  2FJG V;  5HK5 E;  3QB4 A;  1BND B;  1M4U A;  3SEK B;  1QFW A;  1FL7 A;  1KLA A;  5JZ7 A;  5BQB A;  1QFW B;  2XV7 A;  1B8K A;  4LXS J;  2R52 A;  2C7W A;  3EO1 C;  1XWD B;  4KV5 A;  3MJG A;  1HRP B;  2QJB A;  4YCI C;  3BMP A;  4QAF C;  3V2A A;  4QCI C;  4AY9 B;  4EC7 A;  5BQ8 D;  2KD3 A;  3E07 A;  2GYZ A;  4MQW B;  4KXZ A;  5HHD A;  2QCQ A;  1BET A;  3BDY V;  5FV1 V;  4LXR J;  1B98 A;  5HI3 A;  1FL7 B;  1M4U L;  4FAO A;  1KAT W;  1BJ1 V;  4GLN E;  4BV4 L;  2VWE A;  1S4Y B;  1HD4 A;  1KLC A;  1TZH V;  5BQE B;  1SGF B;  1RV6 V;  4X1J A;  2GOO A;  4UI2 B;  4ZBN A;  4HSA A;  1B8M A;  5HI5 A;  4QHU C;  1REU A;  1VPF A;  5HK5 A;  1AGQ A;  1MKG A;  5HHV A;  1SG1 A;  4MID A;  1FZV A;  3KFD A;  4UI1 A;  1TGJ A;  5BPU A;  2GH0 C;  1KTZ A;  2QJ9 A;  3S1K V;  3MJK A;  1MKK A;  1QTY R;  2R53 A;  3P9W A;  1NYS B;  5BQ8 A;  3S1B V;  1B8M B;  4UHZ A;  2TGI A;  1AOC A;  4UI0 A;  2GYR A;  5AEJ A;  1TFG A;  2H64 A;  2H62 A;  1JPY A;  2VXS A;  1BTG A;  1WQ9 A;  2V5E B;  5F3H I;  1PDG A;  3IJ2 A;  1HCN A;  2PJY A;  5HI4 A;  1NT3 A;  2XAC A;  1BND A;  1BMP A;  5FV2 V;  4EFV A;  1DZ7 A;  3BK3 A;  4HQX A;  4UHY A;  1WWW V; 
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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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