1EC6A

Crystal structure of nova-2 kh3 k-homology rna-binding domain bound to 20-mer rna hairpin
Total Genus 27
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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
27
sequence length
87
structure length
87
Chain Sequence
MKELVEIAVPENLVGAILGKGGKTLVEYQELTGARIQISKKGEFLPGTRNRRVTITGSPAATQAAQYLISQRVTYEQGVRASNPQKV
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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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publication title Sequence-specific RNA binding by a Nova KH domain: implications for paraneoplastic disease and the fragile X syndrome.
pubmed doi rcsb
molecule tags Rna binding protein/rna
source organism Homo sapiens
molecule keywords 20-MER RNA HAIRPIN
total genus 27
structure length 87
sequence length 87
chains with identical sequence B
ec nomenclature
pdb deposition date 2000-01-25

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00013 KH_1 KH domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1370.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1 K Homology domain, type 1 1ec6A00
1DT4A 4WALA 2QNDA 1TUAA 2PY9A 2MJHA 1X4MA 2AXYA 2CTLA 2CTEA 1ZZJA 1WE8A 1DTJA 2JEAI 1X4NA 3L7ZC 4QMFB 2PQUA 4JVYA 3U1KA 4B8TA 2E3UA 2CTKA 2FMRA 2Z0SA 3VKEA 2P2RA 4AM3A 1EC6A 4AIMA 2JEBI 2OPUA 1KHMA 2JVZA 2NN6G 4WANA 4BA2I 5C0XG 1ZTGA 4LIJA 5JEAG 1J5KA 1VIGA 2BL5A 1VIHA 2JA9A 2ANRA 2HH2A 2OPVA 1J4WA 1ZZKA 2CTMA 4NBQA 2JE6I 1WVNA 2CTFA 2YQRA 3V69A 2HH3A 2JZXA 2CTJA 1K1GA 4OO1G 4JVHA 1ZZIA 4BA1I 2ANNA 2BA0A 3AEVB 2CPQA 5K36G 4IFDG 2DGRA
chains in the Genus database with same CATH superfamily
4LFCH 3GKUA 3JAMW 1N34H 2QNDA 4DR2H 2A1SA 1MSZA 2ZM6H 2LRRA 2UXCH 4X66H 3UOEA 4YY3H 4JI0H 4JI5H 1S03G 2E3UA 3OETA 2CTKA 2FMRA 4X65H 3VKEA 3EZJA 3T1HH 2Y3MA 2NN6G 2M6QA 4BA2I 4OD6A 1XRHA 5C0XG 5JEAG 4DV7H 2X06A 1S20A 1J5KA 1ZTGA 4JI6H 4DUZH 1HNWH 1HR0H 4LF9H 1J4WA 1ZZKA 2G8YA 3FAUA 2UUAH 2FFMA 4B3MH 4GKKH 4NBQA 4LFBH 4AQYH 2YQRA 2UU9H 2JZXA 1K1GA 2LTMA 1XMOH 1ZZIA 4X64H 3AEVB 4JI2H 1X0AA 1IBMH 4H8AA 4NZRM 1AN7A 2CWHA 1DT4A 5LMUH 4DUYH 4DV3H 1TUAA 4E9JA 2PY9A 1X4MA 2AXYA 2CTLA 4DV4H 4DR4H 5IWAH 1J5EH 3QD7X 1X4NA 4QMFB 3J80W 4JVYA 4B8TA 1WHRA 4FJUA 2P2RA 2PT7G 3OSSD 4GKJH 5A2QW 4G08A 2OPUA 4B3RH 1SEIA 2JVZA 4DV2H 4DR7H 2E5LH 4B3TH 4DR5H 2JA9A 2ANRA 1N32H 2HH2A 4DR3H 1IBLH 1XNQH 1HNXH 4DR6H 2JE6I 1F0XA 4LF6H 1V8CA 1IBKH 2UUCH 1FKAH 4X62H 3OTOH 2BA0A 1N33H 2M8WA 3J81W 5K36G 4LF7H 4EC5A 5BR8H 1I94H 4LFAH 2MJHA 4JI7H 1ZZJA 2CTEA 5FLXW 4K0KH 1WE8A 3GR5A 2JEAI 2PQUA 3L7ZC 4YHHH 2CPMA 1N36H 1I6UA 4LF5H 1EC6A 1KHMA 2UUBH 2UXDH 4WANA 2FPHX 1XNRH 4LIJA 4NXMH 1V9NA 4JYAH 4DV1H 4JI4H 2OPVA 2VQFH 4DV5H 4OCHA 1PQXA 1WTJA 4JI3H 3GABA 2CTJA 4JI8H 4LF8H 4DR1H 1Z2IA 5DT9A 4JVHA 4BA1I 2ANNA 4B3SH 4JV5H 2CPQA 4IFDG 2DGRA 4DV0H 1NXUA 2O4CA 4WALA 1UG8A 4KHPH 2K1HA 2UXBH 1DTJA 2D9IA 3U1KA 3NCVA 1VBIA 3I0PA 2Z0SA 2LF0A 4NXNH 2LTLA 2ZQEA 4AM3A 4AIMA 2JEBI 1XMQH 1HNZH 5LL6b 3RF2A 1VIGA 2CWFA 1FJGH 2BL5A 1VIHA 4B8CD 4PDBA 2CTMA 3T1YH 3J7AK 3KDGA 4JI1H 1X9ZA 2F4VH 1WVNA 2CTFA 2HHHH 2VKCA 2HH3A 4NZTM 3V69A 4DV6H 4LF4H 3SB1A 4OX9H 4OO1G 1ODHA 5IT9W 5LMNH 3KDKA 4FJSA 2VQEH
chains in the Genus database with same CATH topology
1DT4A 4WALA 2QNDA 1TUAA 2PY9A 2MJHA 1X4MA 2AXYA 2CTLA 2CTEA 1ZZJA 1WE8A 1DTJA 2JEAI 1X4NA 3L7ZC 4QMFB 2PQUA 4JVYA 3U1KA 4B8TA 2E3UA 2CTKA 2FMRA 2Z0SA 3VKEA 2P2RA 4AM3A 1EC6A 4AIMA 2JEBI 2OPUA 1KHMA 2JVZA 2NN6G 4WANA 4BA2I 5C0XG 1ZTGA 4LIJA 5JEAG 1J5KA 1VIGA 2BL5A 1VIHA 2JA9A 2ANRA 2HH2A 2OPVA 1J4WA 1ZZKA 2CTMA 4NBQA 2JE6I 1WVNA 2CTFA 2YQRA 3V69A 2HH3A 2JZXA 2CTJA 1K1GA 4OO1G 4JVHA 1ZZIA 4BA1I 2ANNA 2BA0A 3AEVB 2CPQA 5K36G 4IFDG 2DGRA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1DT4 A;  4WAL A;  2QND A;  1TUA A;  2PY9 A;  2MJH A;  1X4M A;  2AXY A;  2CTL A;  2CTE A;  1ZZJ A;  1WE8 A;  1DTJ A;  2JEA I;  1X4N A;  3L7Z C;  4QMF B;  2PQU A;  4JVY A;  3U1K A;  4B8T A;  2E3U A;  2CTK A;  2FMR A;  2Z0S A;  3VKE A;  2P2R A;  4AM3 A;  1EC6 A;  4AIM A;  2JEB I;  2OPU A;  1KHM A;  2JVZ A;  2NN6 G;  4WAN A;  4BA2 I;  5C0X G;  1ZTG A;  4LIJ A;  5JEA G;  1J5K A;  1VIG A;  2BL5 A;  1VIH A;  2JA9 A;  2ANR A;  2HH2 A;  2OPV A;  1J4W A;  1ZZK A;  2CTM A;  4NBQ A;  2JE6 I;  1WVN A;  2CTF A;  2YQR A;  3V69 A;  2HH3 A;  2JZX A;  2CTJ A;  1K1G A;  4OO1 G;  4JVH A;  1ZZI A;  4BA1 I;  2ANN A;  2BA0 A;  3AEV B;  2CPQ A;  5K36 G;  4IFD G;  2DGR A; 
#chains in the Genus database with same CATH topology
 4LFC H;  3GKU A;  3JAM W;  1N34 H;  2QND A;  4DR2 H;  2A1S A;  1MSZ A;  2ZM6 H;  2LRR A;  2UXC H;  4X66 H;  3UOE A;  4YY3 H;  4JI0 H;  4JI5 H;  1S03 G;  2E3U A;  3OET A;  2CTK A;  2FMR A;  4X65 H;  3VKE A;  3EZJ A;  3T1H H;  2Y3M A;  2NN6 G;  2M6Q A;  4BA2 I;  4OD6 A;  1XRH A;  5C0X G;  5JEA G;  4DV7 H;  2X06 A;  1S20 A;  1J5K A;  1ZTG A;  4JI6 H;  4DUZ H;  1HNW H;  1HR0 H;  4LF9 H;  1J4W A;  1ZZK A;  2G8Y A;  3FAU A;  2UUA H;  2FFM A;  4B3M H;  4GKK H;  4NBQ A;  4LFB H;  4AQY H;  2YQR A;  2UU9 H;  2JZX A;  1K1G A;  2LTM A;  1XMO H;  1ZZI A;  4X64 H;  3AEV B;  4JI2 H;  1X0A A;  1IBM H;  4H8A A;  4NZR M;  1AN7 A;  2CWH A;  1DT4 A;  5LMU H;  4DUY H;  4DV3 H;  1TUA A;  4E9J A;  2PY9 A;  1X4M A;  2AXY A;  2CTL A;  4DV4 H;  4DR4 H;  5IWA H;  1J5E H;  3QD7 X;  1X4N A;  4QMF B;  3J80 W;  4JVY A;  4B8T A;  1WHR A;  4FJU A;  2P2R A;  2PT7 G;  3OSS D;  4GKJ H;  5A2Q W;  4G08 A;  2OPU A;  4B3R H;  1SEI A;  2JVZ A;  4DV2 H;  4DR7 H;  2E5L H;  4B3T H;  4DR5 H;  2JA9 A;  2ANR A;  1N32 H;  2HH2 A;  4DR3 H;  1IBL H;  1XNQ H;  1HNX H;  4DR6 H;  2JE6 I;  1F0X A;  4LF6 H;  1V8C A;  1IBK H;  2UUC H;  1FKA H;  4X62 H;  3OTO H;  2BA0 A;  1N33 H;  2M8W A;  3J81 W;  5K36 G;  4LF7 H;  4EC5 A;  5BR8 H;  1I94 H;  4LFA H;  2MJH A;  4JI7 H;  1ZZJ A;  2CTE A;  5FLX W;  4K0K H;  1WE8 A;  3GR5 A;  2JEA I;  2PQU A;  3L7Z C;  4YHH H;  2CPM A;  1N36 H;  1I6U A;  4LF5 H;  1EC6 A;  1KHM A;  2UUB H;  2UXD H;  4WAN A;  2FPH X;  1XNR H;  4LIJ A;  4NXM H;  1V9N A;  4JYA H;  4DV1 H;  4JI4 H;  2OPV A;  2VQF H;  4DV5 H;  4OCH A;  1PQX A;  1WTJ A;  4JI3 H;  3GAB A;  2CTJ A;  4JI8 H;  4LF8 H;  4DR1 H;  1Z2I A;  5DT9 A;  4JVH A;  4BA1 I;  2ANN A;  4B3S H;  4JV5 H;  2CPQ A;  4IFD G;  2DGR A;  4DV0 H;  1NXU A;  2O4C A;  4WAL A;  1UG8 A;  4KHP H;  2K1H A;  2UXB H;  1DTJ A;  2D9I A;  3U1K A;  3NCV A;  1VBI A;  3I0P A;  2Z0S A;  2LF0 A;  4NXN H;  2LTL A;  2ZQE A;  4AM3 A;  4AIM A;  2JEB I;  1XMQ H;  1HNZ H;  5LL6 b;  3RF2 A;  1VIG A;  2CWF A;  1FJG H;  2BL5 A;  1VIH A;  4B8C D;  4PDB A;  2CTM A;  3T1Y H;  3J7A K;  3KDG A;  4JI1 H;  1X9Z A;  2F4V H;  1WVN A;  2CTF A;  2HHH H;  2VKC A;  2HH3 A;  4NZT M;  3V69 A;  4DV6 H;  4LF4 H;  3SB1 A;  4OX9 H;  4OO1 G;  1ODH A;  5IT9 W;  5LMN H;  3KDK A;  4FJS A;  2VQE H; 
#chains in the Genus database with same CATH homology
 1DT4 A;  4WAL A;  2QND A;  1TUA A;  2PY9 A;  2MJH A;  1X4M A;  2AXY A;  2CTL A;  2CTE A;  1ZZJ A;  1WE8 A;  1DTJ A;  2JEA I;  1X4N A;  3L7Z C;  4QMF B;  2PQU A;  4JVY A;  3U1K A;  4B8T A;  2E3U A;  2CTK A;  2FMR A;  2Z0S A;  3VKE A;  2P2R A;  4AM3 A;  1EC6 A;  4AIM A;  2JEB I;  2OPU A;  1KHM A;  2JVZ A;  2NN6 G;  4WAN A;  4BA2 I;  5C0X G;  1ZTG A;  4LIJ A;  5JEA G;  1J5K A;  1VIG A;  2BL5 A;  1VIH A;  2JA9 A;  2ANR A;  2HH2 A;  2OPV A;  1J4W A;  1ZZK A;  2CTM A;  4NBQ A;  2JE6 I;  1WVN A;  2CTF A;  2YQR A;  3V69 A;  2HH3 A;  2JZX A;  2CTJ A;  1K1G A;  4OO1 G;  4JVH A;  1ZZI A;  4BA1 I;  2ANN A;  2BA0 A;  3AEV B;  2CPQ A;  5K36 G;  4IFD G;  2DGR 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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