3VKEA

Contribution of the first k-homology domain of poly(c)-binding protein 1 to its affinity and specificity for c-rich oligonucleotides
Total Genus 23
Loading diagram...

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
23
sequence length
76
structure length
76
Chain Sequence
HMLTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNSPERIITLTGPTNAIFKAFAMIIDKLEEDINSSW
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Dna binding protein/dna
molecule keywords Poly(rC)-binding protein 1
publication title Contribution of the first K-homology domain of poly(C)-binding protein 1 to its affinity and specificity for C-rich oligonucleotides
pubmed doi rcsb
source organism Homo sapiens
total genus 23
structure length 76
sequence length 76
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2011-11-15

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 3vkeA00
1X4MA 2DGRA 4IFDG 2OPVA 2HH2A 4BA2I 1ZZKA 4JVYA 1X4NA 1WE8A 2CTEA 2YQRA 2JZXA 3AEVB 4WALA 1K1GA 2MJHA 1VIGA 3L7ZC 2HH3A 2NN6G 1VIHA 1J4WA 2CTMA 2P2RA 5K36G 1KHMA 4OO1G 4WANA 1EC6A 2JVZA 5JEAG 2Z0SA 4QMFB 2JA9A 2JEBI 2QNDA 2JE6I 5C0XG 2OPUA 2CTFA 2BL5A 2E3UA 2FMRA 2PQUA 4AIMA 4BA1I 1ZZIA 3V69A 2AXYA 2PY9A 2JEAI 3U1KA 1J5KA 1TUAA 1ZTGA 3VKEA 4B8TA 4AM3A 2ANNA 2BA0A 4LIJA 2CTJA 1DT4A 1ZZJA 1DTJA 2CTLA 1WVNA 4NBQA 2ANRA 2CPQA 2CTKA 4JVHA
chains in the Genus database with same CATH superfamily
1X4MA 4IFDG 4DV3H 2HH2A 3OTOH 4JYAH 1X4NA 4LF9H 3AEVB 4DUZH 4YY3H 4NXMH 3L7ZC 2HH3A 4DR3H 1J4WA 2CTMA 2X06A 2P2RA 4OO1G 4LF8H 3EZJA 2OPUA 2BL5A 2CTFA 2E3UA 2FMRA 4JI5H 4OX9H 4AIMA 1NXUA 4GKKH 2UXDH 2AXYA 4DV1H 1XNQH 4JI6H 4DV7H 4DR7H 4OD6A 3GKUA 5A2QW 3VKEA 3T1HH 1IBKH 4LF7H 2D9IA 4FJSA 4NZRM 2ANNA 4AM3A 4LIJA 2CTJA 1DT4A 1WVNA 2CPQA 5BR8H 1UG8A 1IBMH 1S20A 3NCVA 2M8WA 2Y3MA 4LF6H 1XNRH 4X66H 4JV5H 1IBLH 2VKCA 4H8AA 2FPHX 2YQRA 1VBIA 2LF0A 4NXNH 4DR4H 1VIGA 1S03G 1EC6A 2JVZA 5JEAG 2Z0SA 3I0PA 4YHHH 2JEBI 2JE6I 5LL6b 4X64H 3JAMW 4BA1I 2CWFA 4EC5A 3J80W 2O4CA 2PY9A 3U1KA 1HR0H 2LTLA 4LFCH 4KHPH 3QD7X 4DV4H 3KDKA 1ODHA 1N33H 4DR6H 1I94H 1TUAA 4DV2H 2G8YA 2DGRA 2UXCH 4BA2I 1ZZKA 4JVYA 3UOEA 4DR1H 1SEIA 1FJGH 1WTJA 1WHRA 2JZXA 4B3SH 4GKJH 4B3TH 1V8CA 2MJHA 1I6UA 4B8CD 4FJUA 1N36H 2VQEH 1XMQH 2E5LH 5K36G 2LTMA 2FFMA 3J81W 5DT9A 1XMOH 1X0AA 2JA9A 5IWAH 4LFBH 2QNDA 2PQUA 1AN7A 2UUAH 2M6QA 4OCHA 1HNWH 1N34H 2ZQEA 2JEAI 4G08A 3GR5A 2PT7G 3RF2A 1J5KA 1J5EH 4PDBA 1F0XA 4B8TA 3T1YH 1ZZJA 2HHHH 4AQYH 1DTJA 2CTLA 4NBQA 4LFAH 1MSZA 1PQXA 2CTKA 4E9JA 2ZM6H 2A1SA 4B3RH 3OETA 4X62H 2OPVA 3OSSD 4NZTM 1HNZH 4JI2H 2UXBH 1WE8A 2CTEA 2K1HA 4DR5H 2UU9H 4B3MH 4JI4H 4WALA 1K1GA 3GABA 1XRHA 4DUYH 4JI8H 5FLXW 2NN6G 1VIHA 4JI7H 3SB1A 1N32H 3FAUA 5IT9W 1KHMA 4WANA 5LMUH 2CWHA 1HNXH 4DR2H 4QMFB 1Z2IA 5C0XG 1V9NA 1FKAH 4JI1H 2LRRA 4K0KH 2CPMA 3J7AK 3KDGA 1ZZIA 3V69A 4X65H 4DV5H 4DV0H 2UUCH 1ZTGA 5LMNH 4JI3H 4JI0H 1X9ZA 2BA0A 2VQFH 2ANRA 4LF4H 2F4VH 4LF5H 2UUBH 4DV6H 4JVHA
chains in the Genus database with same CATH topology
1X4MA 2DGRA 4IFDG 2OPVA 2HH2A 4BA2I 1ZZKA 4JVYA 1X4NA 1WE8A 2CTEA 2YQRA 2JZXA 3AEVB 4WALA 1K1GA 2MJHA 1VIGA 3L7ZC 2HH3A 2NN6G 1VIHA 1J4WA 2CTMA 2P2RA 5K36G 1KHMA 4OO1G 4WANA 1EC6A 2JVZA 5JEAG 2Z0SA 4QMFB 2JA9A 2JEBI 2QNDA 2JE6I 5C0XG 2OPUA 2CTFA 2BL5A 2E3UA 2FMRA 2PQUA 4AIMA 4BA1I 1ZZIA 3V69A 2AXYA 2PY9A 2JEAI 3U1KA 1J5KA 1TUAA 1ZTGA 3VKEA 4B8TA 4AM3A 2ANNA 2BA0A 4LIJA 2CTJA 1DT4A 1ZZJA 1DTJA 2CTLA 1WVNA 4NBQA 2ANRA 2CPQA 2CTKA 4JVHA
chains in the Genus database with same CATH homology


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

 
#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...