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 |
15
|
sequence length |
94
|
structure length |
94
|
Chain Sequence |
VVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQHIGEMSFLQHNKCECRPK
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
VEGF and the Fab fragment of a humanized neutralizing antibody: crystal structure of the complex at 2.4 A resolution and mutational analysis of the interface.
pubmed doi rcsb |
| molecule keywords |
Fab fragment, light chain
|
| molecule tags |
Immune system
|
| source organism |
Mus musculus
|
| total genus |
15
|
| structure length |
94
|
| sequence length |
94
|
| chains with identical sequence |
W
|
| ec nomenclature | |
| pdb deposition date | 1998-06-30 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| V | PF00341 | PDGF | PDGF/VEGF domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Beta | Ribbon | Cystine Knot Cytokines, subunit B | Cystine-knot cytokines |
#chains in the Genus database with same CATH superfamily 2R52 A; 2B0U A; 5BQC A; 1XWD A; 1NYU B; 1B8M B; 2QR0 C; 1WAQ A; 1RV6 V; 4UHY A; 2GYZ A; 1WQ9 B; 3MJK A; 1MKG A; 1TZH V; 1SGF B; 5HHC A; 1VPF A; 5F3H I; 2H62 A; 2QJB A; 3KFD A; 2X1X E; 4ZBN A; 1QFW A; 4UHZ A; 1HCN A; 4EFV A; 1NT3 A; 3BUK A; 2GH0 C; 3V6B A; 2ARV A; 2VXS A; 3V2A A; 4LXS J; 1FLT V; 2FJG V; 5HI5 A; 1FL7 A; 3JVF A; 1AOC A; 3EVS B; 4FAO A; 5HHD A; 5BPU A; 4AY9 A; 1QTY R; 4EDW V; 1JPY A; 1BTG A; 4HQX A; 1M4U L; 4KXZ A; 1SG1 A; 1M4U A; 4HR9 A; 5BQ8 B; 1FZV A; 2VPF A; 1HCF A; 1KTZ A; 3BDY V; 2H64 A; 3P9W A; 2C7W A; 4LXR J; 4WPB A; 2VWE A; 4ZFF C; 1HRP B; 4BV4 L; 3BMP A; 4YCG C; 4UI1 A; 5HI4 A; 4X1J A; 1CZ8 V; 5BQB A; 2P6A A; 2GYR A; 2GOO A; 3QTK A; 4EAX A; 3BK3 A; 2KD3 A; 3MJG A; 4KZN A; 3QB4 A; 4YCI C; 2FJH V; 4MQW B; 1AGQ A; 1KLC A; 1QFW B; 2BHK A; 4UI0 A; 4HSA A; 1MKK A; 4QAF C; 5HHX A; 1S4Y B; 5BQE A; 1BND A; 3IJ2 A; 2XV7 A; 2X1W A; 4N1D A; 1B98 A; 4UI2 B; 5FV2 V; 1REW A; 4EC7 A; 4AY9 B; 2R53 A; 1TZI V; 3B4V A; 3HH2 A; 1VPP V; 4MID A; 5JZ7 A; 2QCW A; 2XAC A; 1TGJ A; 2GNN A; 5BQ8 A; 5AEJ A; 1LX5 A; 1B8K A; 1XWD B; 1ES7 A; 5HK5 A; 1B8M A; 1HRP A; 5HHV A; 2IFG E; 1WQ9 A; 5FV1 V; 3S1K V; 2V5E B; 1TGK A; 3RJR A; 3EO1 C; 1KAT W; 2QCQ A; 1HCN B; 1LXI A; 5E4G A; 4QCI C; 3FUB B; 3S1B V; 1FL7 B; 2ASK A; 4KV5 A; 3SEK B; 1KLA A; 1E9J A; 1HD4 A; 3E07 A; 4MQW A; 1WWW V; 4XPJ A; 4HQU A; 1ZKZ A; 1PDG A; 1MJV A; 2QJA A; 1BND B; 4QHU C; 5BQE B; 4GLN E; 1TFG A; 1BMP A; 1DZ7 A; 1NYS B; 2QJ9 A; 5HI3 A; 4GLS E; 2ARP A; 5BQ8 D; 2TGI A; 1REU A; 4MPL A; 1BJ1 V; 1WQ8 A; 5HK5 E; 4EDX V; 5F3B C; 2PJY A; 1BET A; #chains in the Genus database with same CATH topology 2R52 A; 2B0U A; 5BQC A; 1XWD A; 1NYU B; 1B8M B; 2QR0 C; 1WAQ A; 1RV6 V; 4UHY A; 2GYZ A; 1WQ9 B; 3MJK A; 1MKG A; 1TZH V; 1SGF B; 5HHC A; 1VPF A; 5F3H I; 2H62 A; 2QJB A; 3KFD A; 2X1X E; 4ZBN A; 1QFW A; 4UHZ A; 1HCN A; 4EFV A; 1NT3 A; 3BUK A; 2GH0 C; 3V6B A; 2ARV A; 2VXS A; 3V2A A; 4LXS J; 1FLT V; 2FJG V; 5HI5 A; 1FL7 A; 3JVF A; 1AOC A; 3EVS B; 4FAO A; 5HHD A; 5BPU A; 4AY9 A; 1QTY R; 4EDW V; 1JPY A; 1BTG A; 4HQX A; 1M4U L; 4KXZ A; 1SG1 A; 1M4U A; 4HR9 A; 5BQ8 B; 1FZV A; 2VPF A; 1HCF A; 1KTZ A; 3BDY V; 2H64 A; 3P9W A; 2C7W A; 4LXR J; 4WPB A; 2VWE A; 4ZFF C; 1HRP B; 4BV4 L; 3BMP A; 4YCG C; 4UI1 A; 5HI4 A; 4X1J A; 1CZ8 V; 5BQB A; 2P6A A; 2GYR A; 2GOO A; 3QTK A; 4EAX A; 3BK3 A; 2KD3 A; 3MJG A; 4KZN A; 3QB4 A; 4YCI C; 2FJH V; 4MQW B; 1AGQ A; 1KLC A; 1QFW B; 2BHK A; 4UI0 A; 4HSA A; 1MKK A; 4QAF C; 5HHX A; 1S4Y B; 5BQE A; 1BND A; 3IJ2 A; 2XV7 A; 2X1W A; 4N1D A; 1B98 A; 4UI2 B; 5FV2 V; 1REW A; 4EC7 A; 4AY9 B; 2R53 A; 1TZI V; 3B4V A; 3HH2 A; 1VPP V; 4MID A; 5JZ7 A; 2QCW A; 2XAC A; 1TGJ A; 2GNN A; 5BQ8 A; 5AEJ A; 1LX5 A; 1B8K A; 1XWD B; 1ES7 A; 5HK5 A; 1B8M A; 1HRP A; 5HHV A; 2IFG E; 1WQ9 A; 5FV1 V; 3S1K V; 2V5E B; 1TGK A; 3RJR A; 3EO1 C; 1KAT W; 2QCQ A; 1HCN B; 1LXI A; 5E4G A; 4QCI C; 3FUB B; 3S1B V; 1FL7 B; 2ASK A; 4KV5 A; 3SEK B; 1KLA A; 1E9J A; 1HD4 A; 3E07 A; 4MQW A; 1WWW V; 4XPJ A; 4HQU A; 1ZKZ A; 1PDG A; 1MJV A; 2QJA A; 1BND B; 4QHU C; 5BQE B; 4GLN E; 1TFG A; 1BMP A; 1DZ7 A; 1NYS B; 2QJ9 A; 5HI3 A; 4GLS E; 2ARP A; 5BQ8 D; 2TGI A; 1REU A; 4MPL A; 1BJ1 V; 1WQ8 A; 5HK5 E; 4EDX V; 5F3B C; 2PJY A; 1BET A; #chains in the Genus database with same CATH homology 2R52 A; 2B0U A; 5BQC A; 1XWD A; 1NYU B; 1B8M B; 2QR0 C; 1WAQ A; 1RV6 V; 4UHY A; 2GYZ A; 1WQ9 B; 3MJK A; 1MKG A; 1TZH V; 1SGF B; 5HHC A; 1VPF A; 5F3H I; 2H62 A; 2QJB A; 3KFD A; 2X1X E; 4ZBN A; 1QFW A; 4UHZ A; 1HCN A; 4EFV A; 1NT3 A; 3BUK A; 2GH0 C; 3V6B A; 2ARV A; 2VXS A; 3V2A A; 4LXS J; 1FLT V; 2FJG V; 5HI5 A; 1FL7 A; 3JVF A; 1AOC A; 3EVS B; 4FAO A; 5HHD A; 5BPU A; 4AY9 A; 1QTY R; 4EDW V; 1JPY A; 1BTG A; 4HQX A; 1M4U L; 4KXZ A; 1SG1 A; 1M4U A; 4HR9 A; 5BQ8 B; 1FZV A; 2VPF A; 1HCF A; 1KTZ A; 3BDY V; 2H64 A; 3P9W A; 2C7W A; 4LXR J; 4WPB A; 2VWE A; 4ZFF C; 1HRP B; 4BV4 L; 3BMP A; 4YCG C; 4UI1 A; 5HI4 A; 4X1J A; 1CZ8 V; 5BQB A; 2P6A A; 2GYR A; 2GOO A; 3QTK A; 4EAX A; 3BK3 A; 2KD3 A; 3MJG A; 4KZN A; 3QB4 A; 4YCI C; 2FJH V; 4MQW B; 1AGQ A; 1KLC A; 1QFW B; 2BHK A; 4UI0 A; 4HSA A; 1MKK A; 4QAF C; 5HHX A; 1S4Y B; 5BQE A; 1BND A; 3IJ2 A; 2XV7 A; 2X1W A; 4N1D A; 1B98 A; 4UI2 B; 5FV2 V; 1REW A; 4EC7 A; 4AY9 B; 2R53 A; 1TZI V; 3B4V A; 3HH2 A; 1VPP V; 4MID A; 5JZ7 A; 2QCW A; 2XAC A; 1TGJ A; 2GNN A; 5BQ8 A; 5AEJ A; 1LX5 A; 1B8K A; 1XWD B; 1ES7 A; 5HK5 A; 1B8M A; 1HRP A; 5HHV A; 2IFG E; 1WQ9 A; 5FV1 V; 3S1K V; 2V5E B; 1TGK A; 3RJR A; 3EO1 C; 1KAT W; 2QCQ A; 1HCN B; 1LXI A; 5E4G A; 4QCI C; 3FUB B; 3S1B V; 1FL7 B; 2ASK A; 4KV5 A; 3SEK B; 1KLA A; 1E9J A; 1HD4 A; 3E07 A; 4MQW A; 1WWW V; 4XPJ A; 4HQU A; 1ZKZ A; 1PDG A; 1MJV A; 2QJA A; 1BND B; 4QHU C; 5BQE B; 4GLN E; 1TFG A; 1BMP A; 1DZ7 A; 1NYS B; 2QJ9 A; 5HI3 A; 4GLS E; 2ARP A; 5BQ8 D; 2TGI A; 1REU A; 4MPL A; 1BJ1 V; 1WQ8 A; 5HK5 E; 4EDX V; 5F3B C; 2PJY A; 1BET A;
#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...
