4JVYA

Structure of the star (signal transduction and activation of rna) domain of gld-1 bound to rna
Total Genus 63
204060801001201401601800102030405060
Genus TraceResidueGenus

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
63
sequence length
191
structure length
191
Chain Sequence
SHEATVEYLADLVKEKKHLTLFPHMFSNVERLLDDEIGRVRVALFQTEFPRVELPEPAGDMISITEKIYVPKNEYPDYNFVGRILGPRGMTAKQLEQDTGCKIMVRGKGSMRDKSKESAHRGKANWEHLEDDLHVLVQCEDTENRVHIKLQAALEQVKKLLIPAPEGTDELKRKQLMELAIINGTYRPMKS
2040608010012014016018015010050
0102030405060Genus Matrix

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
AH1 (147-161)TVIII1 (161-164)AH2 (168-186)TIV1 (163-166)EMPTYUpdating...
connected with : NaN
molecule tags Rna binding protein
source organism Caenorhabditis elegans
publication title Structure-function studies of STAR family Quaking proteins bound to their in vivo RNA target sites.
pubmed doi rcsb
molecule keywords Female germline-specific tumor suppressor gld-1
total genus 63
structure length 191
sequence length 191
chains with identical sequence B
ec nomenclature
pdb deposition date 2013-03-26

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 4jvyA00
4JVHA 3U1KA 2DGRA 4LIJA 2JE6I 2OPVA 4WALA 2CTEA 1ZZJA 3AEVB 2CTMA 4BA1I 2JA9A 2AXYA 2ANRA 1X4MA 2BL5A 2E3UA 1ZZIA 4IFDG 2MJHA 1J5KA 2CTFA 5K36G 1VIHA 4NBQA 2JZXA 4QMFB 1K1GA 2PQUA 2BA0A 2NN6G 2HH2A 1J4WA 2CTKA 2FMRA 2JVZA 2ANNA 2HH3A 1DTJA 2P2RA 2PY9A 2YQRA 4B8TA 4OO1G 2CPQA 1KHMA 2QNDA 1ZZKA 2JEAI 2JEBI 5C0XG 2CTJA 1WVNA 2OPUA 1EC6A 4WANA 1ZTGA 1DT4A 1X4NA 1VIGA 1WE8A 2CTLA 2Z0SA 5JEAG 3VKEA 1TUAA 4BA2I 4AM3A 4JVYA 3V69A 4AIMA 3L7ZC
chains in the Genus database with same CATH superfamily
3U1KA 4LIJA 2JE6I 1FJGH 4DV2H 4OCHA 4JI1H 1S20A 4JI3H 3J7AK 5LMUH 2HHHH 1XMOH 2JA9A 4LFBH 1ODHA 1X4MA 2BL5A 1WHRA 2E3UA 1J5KA 2CTFA 1X0AA 1XRHA 3KDGA 1IBMH 1F0XA 1J5EH 4DR5H 1XNRH 4DV3H 1HNZH 3UOEA 4JI7H 4NXMH 1V8CA 2JEAI 4B3TH 4B8CD 3JAMW 4LFAH 4KHPH 2PT7G 4NZRM 1ZTGA 2CTLA 1WE8A 4DV5H 4AM3A 1TUAA 3OSSD 4EC5A 4BA2I 3V69A 3L7ZC 2UUAH 1PQXA 2OPVA 4WALA 4LF6H 1ZZJA 5IT9W 1HNXH 3OTOH 4LF4H 2ANRA 4IFDG 5K36G 3QD7X 1SEIA 4GKKH 1VIHA 4LFCH 1I6UA 4QMFB 3KDKA 1K1GA 1S03G 2UXBH 2BA0A 2F4VH 4GKJH 1HNWH 1V9NA 2CTKA 2ANNA 2P2RA 2PY9A 1KHMA 2QNDA 1ZZKA 2CWFA 2K1HA 3FAUA 5DT9A 4FJSA 4JI5H 1VBIA 2LF0A 4DR6H 1N36H 4OD6A 4DV1H 3I0PA 4X64H 2VKCA 1VIGA 1X9ZA 2LTLA 4DR1H 2UUCH 4DV7H 3VKEA 2LRRA 4DR7H 1IBLH 1N33H 1N32H 4JI4H 4LF8H 4DUYH 4LF7H 2CTEA 3EZJA 2LTMA 4B3RH 2CTMA 1N34H 4YY3H 4DV0H 2MJHA 1UG8A 5BR8H 4PDBA 4NBQA 5LL6b 4X65H 4DV4H 3GABA 1NXUA 2G8YA 1XMQH 1I94H 4LF5H 2FMRA 4DR4H 4OO1G 2HH3A 1DTJA 2YQRA 1AN7A 2O4CA 4JI8H 5IWAH 1MSZA 3GKUA 3RF2A 5LMNH 2A1SA 2CTJA 1EC6A 2OPUA 1WTJA 2Z0SA 4LF9H 4JI6H 1FKAH 3NCVA 4JV5H 2FFMA 5JEAG 2E5LH 2FPHX 2ZM6H 4DV6H 4AIMA 4B8TA 4NXNH 4JVHA 2DGRA 3GR5A 4JYAH 3OETA 3J81W 4B3SH 2VQEH 3T1HH 3AEVB 4X66H 4BA1I 4DR3H 4AQYH 2AXYA 1ZZIA 4K0KH 2X06A 4YHHH 2ZQEA 5FLXW 4H8AA 2UU9H 2M8WA 2JZXA 2Y3MA 4FJUA 3SB1A 3J80W 4NZTM 2PQUA 4DUZH 2VQFH 2CWHA 2NN6G 4B3MH 2HH2A 1J4WA 2CPMA 4X62H 1IBKH 2M6QA 1HR0H 2D9IA 2JVZA 2UXCH 2CPQA 4E9JA 4OX9H 2JEBI 5C0XG 3T1YH 4JI0H 5A2QW 4JI2H 1WVNA 4DR2H 1XNQH 2UXDH 4WANA 1DT4A 1X4NA 1Z2IA 4G08A 4JVYA 2UUBH
chains in the Genus database with same CATH topology
4JVHA 3U1KA 2DGRA 4LIJA 2JE6I 2OPVA 4WALA 2CTEA 1ZZJA 3AEVB 2CTMA 4BA1I 2JA9A 2AXYA 2ANRA 1X4MA 2BL5A 2E3UA 1ZZIA 4IFDG 2MJHA 1J5KA 2CTFA 5K36G 1VIHA 4NBQA 2JZXA 4QMFB 1K1GA 2PQUA 2BA0A 2NN6G 2HH2A 1J4WA 2CTKA 2FMRA 2JVZA 2ANNA 2HH3A 1DTJA 2P2RA 2PY9A 2YQRA 4B8TA 4OO1G 2CPQA 1KHMA 2QNDA 1ZZKA 2JEAI 2JEBI 5C0XG 2CTJA 1WVNA 2OPUA 1EC6A 4WANA 1ZTGA 1DT4A 1X4NA 1VIGA 1WE8A 2CTLA 2Z0SA 5JEAG 3VKEA 1TUAA 4BA2I 4AM3A 4JVYA 3V69A 4AIMA 3L7ZC
chains in the Genus database with same CATH homology


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

 
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