2VKCA

Solution structure of the b3bp smr domain
Total Genus 32
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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
32
sequence length
105
structure length
105
Chain Sequence
b'MKEANHLAAIEIFEKVNASLLPQNVLDLHGLHVDEALEHLMRVLEKKTEEFKQNGGKPYLSVITGRGNHSQGGVARIKPAVIKYLISHSFRFSEIKPGCLKVMLK'
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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.

publication title Solution Structure and Characterization of the DNA- Binding Activity of the B3BP-Smr Domain.
pubmed doi rcsb
molecule keywords NEDD4-BINDING PROTEIN 2
source organism Homo sapiens
molecule tags Hydrolase
total genus 32
structure length 105
sequence length 105
ec nomenclature
pdb deposition date 2007-12-18

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01713 Smr Smr domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1370.110 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1 Ribosomal Protein S8; Chain: A, domain 1 2vkcA00
2D9IA 2ZQEA 4OCHA 4OD6A 3FAUA 3QD7X 2VKCA
chains in the Genus database with same CATH superfamily
2VQFH 4JI1H 1X4MA 1XMOH 2P2RA 4OCHA 4OD6A 1J4WA 2FMRA 4B8CD 3SB1A 2Y3MA 2UUCH 5LMUH 1V8CA 3FAUA 3GABA 1X4NA 3JAMW 4LF6H 4KHPH 1IBMH 2QNDA 4H8AA 4LFBH 4DV6H 1XMQH 3NCVA 2JE6I 1FJGH 5DT9A 2AXYA 3GKUA 5JEAG 4LFCH 2PY9A 3QD7X 2CPQA 2LF0A 1ZZKA 1ZTGA 2CPMA 4JVYA 4DV7H 4DUZH 2LRRA 4DV3H 1X0AA 3KDKA 4LIJA 3VKEA 4JI7H 3OETA 2MJHA 3J7AK 4DUYH 1VIGA 2K1HA 4DV2H 4LF4H 4DR6H 2JZXA 4LF5H 3GR5A 2Z0SA 2FPHX 1I94H 4DR5H 3EZJA 1S03G 4K0KH 2ANRA 4JI8H 2M6QA 1HNWH 2CTKA 1WVNA 3J81W 1HNXH 3AEVB 4BA2I 4JI3H 4DR4H 4YY3H 1J5KA 2UUBH 4AM3A 4AQYH 2JEAI 2ANNA 5IT9W 4JI0H 4JI5H 2OPVA 2BA0A 2HH3A 4QMFB 4DV0H 3I0PA 4X64H 1N33H 2UUAH 4GKJH 3RF2A 4DV1H 1J5EH 2BL5A 4LF8H 1XNRH 5K36G 3J80W 1DTJA 2VKCA 5LL6b 1KHMA 2E3UA 2F4VH 4DR7H 2JEBI 1XRHA 4NZTM 1ZZIA 2A1SA 2OPUA 4OX9H 2E5LH 3UOEA 4PDBA 3KDGA 3L7ZC 2PQUA 2CTLA 2CTFA 2O4CA 4B3RH 4NBQA 4E9JA 4FJSA 1HR0H 1FKAH 5A2QW 1XNQH 3T1HH 1X9ZA 5FLXW 4B3SH 2CWHA 5LMNH 2HHHH 1K1GA 2NN6G 3OTOH 1ZZJA 2UU9H 2M8WA 1DT4A 4LF7H 1N32H 5IWAH 4NZRM 1NXUA 3OSSD 2VQEH 2X06A 4EC5A 4LF9H 1PQXA 2ZM6H 2LTLA 4JI4H 2FFMA 3V69A 2CTJA 2UXBH 4JI2H 1WTJA 2CTEA 1IBKH 1EC6A 1WHRA 4X65H 1IBLH 4WANA 1ODHA 1V9NA 2G8YA 4X66H 1F0XA 2CWFA 4JV5H 3U1KA 4B3MH 4BA1I 4IFDG 4AIMA 2JVZA 4DR3H 1VIHA 4JYAH 3T1YH 2DGRA 5BR8H 2YQRA 4YHHH 2ZQEA 4JI6H 4B3TH 1I6UA 4B8TA 2UXDH 1VBIA 4WALA 4FJUA 2LTMA 2HH2A 4DR2H 2PT7G 1N36H 4G08A 1AN7A 4NXNH 2UXCH 2JA9A 4DR1H 1MSZA 4DV5H 4JVHA 1S20A 4GKKH 1N34H 2D9IA 4NXMH 1Z2IA 2CTMA 4OO1G 1TUAA 5C0XG 1HNZH 4LFAH 1SEIA 4DV4H 1WE8A 4X62H 1UG8A
chains in the Genus database with same CATH topology
2VQFH 4JI1H 1XMOH 4OCHA 4OD6A 4B8CD 3SB1A 2Y3MA 2UUCH 5LMUH 3FAUA 3GABA 3JAMW 4LF6H 4KHPH 1IBMH 4LFBH 4DV6H 1XMQH 3NCVA 1FJGH 5DT9A 4LFCH 3QD7X 2LF0A 4DV7H 4DUZH 4DV3H 3KDKA 4JI7H 3OETA 3J7AK 4DUYH 4DV2H 4LF4H 4DR6H 4LF5H 3GR5A 2FPHX 1I94H 4DR5H 3EZJA 1S03G 4K0KH 4JI8H 1HNWH 3J81W 1HNXH 4JI3H 4DR4H 4YY3H 2UUBH 4AQYH 5IT9W 4JI0H 4JI5H 4DV0H 4X64H 1N33H 2UUAH 4GKJH 3RF2A 4DV1H 1J5EH 4LF8H 1XNRH 3J80W 5LL6b 2VKCA 2F4VH 4DR7H 4NZTM 4OX9H 2E5LH 4PDBA 3KDGA 2O4CA 4B3RH 4E9JA 1HR0H 1XNQH 1FKAH 5A2QW 3T1HH 1X9ZA 5FLXW 4B3SH 5LMNH 2HHHH 3OTOH 2UU9H 1N32H 4LF7H 5IWAH 4NZRM 3OSSD 2VQEH 4EC5A 4LF9H 2ZM6H 4JI4H 2UXBH 4JI2H 1IBKH 4X65H 1IBLH 1ODHA 4X66H 1F0XA 4JV5H 4B3MH 4DR3H 4JYAH 3T1YH 5BR8H 4YHHH 4JI6H 2ZQEA 4B3TH 1I6UA 2UXDH 4DR2H 2PT7G 1N36H 4G08A 1AN7A 4NXNH 2UXCH 4DR1H 4DV5H 4GKKH 1N34H 2D9IA 4NXMH 1HNZH 4LFAH 1SEIA 4DV4H 4X62H
chains in the Genus database with same CATH homology


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