1J3CA

Solution structure of the c-terminal domain of the hmgb2
Total Genus 13
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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
13
sequence length
79
structure length
79
Chain Sequence
MKKKDPNAPKRPPSAFFLFCSEYRPKIKSEHPGLSIGDTAKKLGEMWSEQSAKDKQPYEQKAAKLKEKYEKDIAAYRAK
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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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molecule tags Dna binding protein
molecule keywords High mobility group protein 2
publication title Strucutral comparison of two HMG-boxes in the non-histone protein HMG-2 with in the HMG-1
rcsb
source organism Sus scrofa
total genus 13
structure length 79
sequence length 79
ec nomenclature
pdb deposition date 2003-01-23

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00505 HMG_box HMG (high mobility group) box
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.30.10 Mainly Alpha Orthogonal Bundle DNA Binding (I), subunit A High mobility group box domain 1j3cA00
2CO9A 4EUWA 3TQ6A 2YUKA 1QRVA 1LWMA 2GZKA 2CS1A 1AABA 1CG7A 1J5NA 1J3CA 1HMEA 1NHNA 1HSNA 2YQIA 1NHMA 1GT0D 1HMFA 1WXLA 2LEFA 4NNUA 1HSMA 2LHJA 3U2BC 2YRQA 2D7LA 2LY4A 4Y60C 1L8ZA 2E6OA 1J46A 1WGFA 1O4XB 4QR9A 1J47A 1L8YA 2CRJA 2CTOA 2HDZA 1HRZA 1WZ6A 1E7JA 4NODA 1HMAA 3F27D 1K99A 1J3DA 3NM9A 1J3XA 4S2QD 3TMMA 3FGHA 1CKTA 2EQZA 1V64A 2LE4A 2YULA 4A3NA 1I11A 1V63A 1HRYA 2RTUA
chains in the Genus database with same CATH superfamily
2CO9A 4EUWA 3TQ6A 2YUKA 1QRVA 1LWMA 2GZKA 2CS1A 1AABA 1CG7A 1J5NA 1J3CA 1HMEA 1NHNA 1HSNA 2YQIA 1NHMA 1GT0D 1HMFA 1WXLA 2LEFA 4NNUA 1HSMA 2LHJA 3U2BC 3ABRB 2YRQA 2D7LA 2LY4A 4Y60C 1L8ZA 2E6OA 5H8WA 1J46A 1WGFA 1O4XB 4QR9A 1J47A 1L8YA 2CRJA 2CTOA 2HDZA 3ABOB 1HRZA 1WZ6A 1E7JA 4NODA 1HMAA 3F27D 3ANYB 4KQEA 1J3DA 1K99A 4A15A 3NM9A 1J3XA 4S2QD 3TMMA 3FGHA 1CKTA 2EQZA 1V64A 2LE4A 2YULA 3ABSB 4A3NA 1I11A 1V63A 1HRYA 3AO0B 2VSFA 2RTUA
chains in the Genus database with same CATH topology
2CO9A 4EUWA 3TQ6A 2YUKA 1QRVA 1LWMA 2GZKA 2CS1A 1AABA 1CG7A 1J5NA 1J3CA 1HMEA 1NHNA 1HSNA 2YQIA 1NHMA 1GT0D 1HMFA 1WXLA 2LEFA 4NNUA 1HSMA 2LHJA 3U2BC 2YRQA 2D7LA 2LY4A 4Y60C 1L8ZA 2E6OA 1J46A 1WGFA 1O4XB 4QR9A 1J47A 1L8YA 2CRJA 2CTOA 2HDZA 1HRZA 1WZ6A 1E7JA 4NODA 1HMAA 3F27D 1K99A 1J3DA 3NM9A 1J3XA 4S2QD 3TMMA 3FGHA 1CKTA 2EQZA 1V64A 2LE4A 2YULA 4A3NA 1I11A 1V63A 1HRYA 2RTUA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2CO9 A;  4EUW A;  3TQ6 A;  2YUK A;  1QRV A;  1LWM A;  2GZK A;  2CS1 A;  1AAB A;  1CG7 A;  1J5N A;  1J3C A;  1HME A;  1NHN A;  1HSN A;  2YQI A;  1NHM A;  1GT0 D;  1HMF A;  1WXL A;  2LEF A;  4NNU A;  1HSM A;  2LHJ A;  3U2B C;  2YRQ A;  2D7L A;  2LY4 A;  4Y60 C;  1L8Z A;  2E6O A;  1J46 A;  1WGF A;  1O4X B;  4QR9 A;  1J47 A;  1L8Y A;  2CRJ A;  2CTO A;  2HDZ A;  1HRZ A;  1WZ6 A;  1E7J A;  4NOD A;  1HMA A;  3F27 D;  1K99 A;  1J3D A;  3NM9 A;  1J3X A;  4S2Q D;  3TMM A;  3FGH A;  1CKT A;  2EQZ A;  1V64 A;  2LE4 A;  2YUL A;  4A3N A;  1I11 A;  1V63 A;  1HRY A;  2RTU A; 
#chains in the Genus database with same CATH topology
 2CO9 A;  4EUW A;  3TQ6 A;  2YUK A;  1QRV A;  1LWM A;  2GZK A;  2CS1 A;  1AAB A;  1CG7 A;  1J5N A;  1J3C A;  1HME A;  1NHN A;  1HSN A;  2YQI A;  1NHM A;  1GT0 D;  1HMF A;  1WXL A;  2LEF A;  4NNU A;  1HSM A;  2LHJ A;  3U2B C;  3ABR B;  2YRQ A;  2D7L A;  2LY4 A;  4Y60 C;  1L8Z A;  2E6O A;  5H8W A;  1J46 A;  1WGF A;  1O4X B;  4QR9 A;  1J47 A;  1L8Y A;  2CRJ A;  2CTO A;  2HDZ A;  3ABO B;  1HRZ A;  1WZ6 A;  1E7J A;  4NOD A;  1HMA A;  3F27 D;  3ANY B;  4KQE A;  1J3D A;  1K99 A;  4A15 A;  3NM9 A;  1J3X A;  4S2Q D;  3TMM A;  3FGH A;  1CKT A;  2EQZ A;  1V64 A;  2LE4 A;  2YUL A;  3ABS B;  4A3N A;  1I11 A;  1V63 A;  1HRY A;  3AO0 B;  2VSF A;  2RTU A; 
#chains in the Genus database with same CATH homology
 2CO9 A;  4EUW A;  3TQ6 A;  2YUK A;  1QRV A;  1LWM A;  2GZK A;  2CS1 A;  1AAB A;  1CG7 A;  1J5N A;  1J3C A;  1HME A;  1NHN A;  1HSN A;  2YQI A;  1NHM A;  1GT0 D;  1HMF A;  1WXL A;  2LEF A;  4NNU A;  1HSM A;  2LHJ A;  3U2B C;  2YRQ A;  2D7L A;  2LY4 A;  4Y60 C;  1L8Z A;  2E6O A;  1J46 A;  1WGF A;  1O4X B;  4QR9 A;  1J47 A;  1L8Y A;  2CRJ A;  2CTO A;  2HDZ A;  1HRZ A;  1WZ6 A;  1E7J A;  4NOD A;  1HMA A;  3F27 D;  1K99 A;  1J3D A;  3NM9 A;  1J3X A;  4S2Q D;  3TMM A;  3FGH A;  1CKT A;  2EQZ A;  1V64 A;  2LE4 A;  2YUL A;  4A3N A;  1I11 A;  1V63 A;  1HRY A;  2RTU 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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#similar chains, but unknotted
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