1NHMA

The structure of the hmg box and its interaction with dna
Total Genus 21
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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
21
sequence length
79
structure length
79
Chain Sequence
NAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAA
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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
molecule keywords HIGH MOBILITY GROUP PROTEIN 1
publication title The Structure of the Hmg Box and its Interaction with DNA
pubmed rcsb
source organism Cricetulus griseus
total genus 21
structure length 79
sequence length 79
ec nomenclature
pdb deposition date 1994-11-17

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 1nhmA00
1J47A 1V63A 1HRZA 1QRVA 4Y60C 4NODA 2YUKA 3NM9A 1HSMA 2CTOA 1E7JA 1K99A 1J3CA 2D7LA 1J3DA 2LE4A 1GT0D 2CRJA 3TMMA 1WXLA 1AABA 2YULA 4EUWA 4S2QD 1L8YA 1O4XB 1J3XA 2CO9A 2YRQA 1HSNA 1WZ6A 1L8ZA 2GZKA 1CG7A 2CS1A 1CKTA 3F27D 1LWMA 2LEFA 2E6OA 1HMAA 3U2BC 1HMFA 1V64A 2HDZA 2LY4A 3FGHA 2LHJA 1WGFA 2RTUA 4A3NA 3TQ6A 1NHNA 2YQIA 1J46A 1HMEA 1NHMA 4QR9A 1HRYA 2EQZA 1I11A 1J5NA 4NNUA
chains in the Genus database with same CATH superfamily
3ABOB 1J47A 1V63A 1J5NA 1HRZA 1QRVA 4Y60C 4NODA 2YUKA 3NM9A 1HSMA 2CTOA 1E7JA 3ABSB 1K99A 1J3CA 2D7LA 1J3DA 2LE4A 1GT0D 2CRJA 3TMMA 1WXLA 1AABA 2YULA 4EUWA 4S2QD 1L8YA 1O4XB 1J3XA 2CO9A 2YRQA 2VSFA 1HSNA 4KQEA 1WZ6A 3AO0B 4A15A 1L8ZA 2GZKA 1CG7A 2CS1A 5H8WA 3F27D 1LWMA 1CKTA 2LEFA 2E6OA 1HMAA 3U2BC 1HMFA 1V64A 2HDZA 2LY4A 3FGHA 2LHJA 1WGFA 2RTUA 4A3NA 3TQ6A 1NHNA 2YQIA 1J46A 1HMEA 3ABRB 1NHMA 4QR9A 1HRYA 2EQZA 1I11A 3ANYB 4NNUA
chains in the Genus database with same CATH topology
1J47A 1V63A 1HRZA 1QRVA 4Y60C 4NODA 2YUKA 3NM9A 1HSMA 2CTOA 1E7JA 1K99A 1J3CA 2D7LA 1J3DA 2LE4A 1GT0D 2CRJA 3TMMA 1WXLA 1AABA 2YULA 4EUWA 4S2QD 1L8YA 1O4XB 1J3XA 2CO9A 2YRQA 1HSNA 1WZ6A 1L8ZA 2GZKA 1CG7A 2CS1A 1CKTA 3F27D 1LWMA 2LEFA 2E6OA 1HMAA 3U2BC 1HMFA 1V64A 2HDZA 2LY4A 3FGHA 2LHJA 1WGFA 2RTUA 4A3NA 3TQ6A 1NHNA 2YQIA 1J46A 1HMEA 1NHMA 4QR9A 1HRYA 2EQZA 1I11A 1J5NA 4NNUA
chains in the Genus database with same CATH homology


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