HOMCOS(prot_sch_conbars.cgi):

		Contact Molecules for Homologous Proteins
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PID

QueryLength

Homolgous Sequence in PDB

UniProt Query

TITLE

1694013

215

P09429(HMGB1_HUMAN)

RecName: Full=High mobility group protein B1;AltName: Full=High mobility group protein 1; Short=HMG-1;

QUERYSEQ

MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAK
LKEKYEKDIAAYRAKGKPDAAKKGVVKAEKSKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE

[BLAST file for PDB] (plain) (bar) (multiple alignment) [BLAST for UniProt: (plain) (bar) (multiple alignment) (PSSM file) ]

UniProt Feature Tables [P09429(HMGB1_HUMAN)]

215
	region	name	description
	1-215	CHAIN	/note="High mobility group protein B1" /id="PRO_0000048526"
	9-79	DNA_BIND	/note="HMG box 1"
	95-163	DNA_BIND	/note="HMG box 2"
	1-97	REGION	/note="Sufficient for interaction with HAVCR2"
	3-15	REGION	/note="LPS binding (delipidated)"
	76-95	REGION	/note="Disordered"
	80-96	REGION	/note="LPS binding (Lipid A)"
	89-108	REGION	/note="Cytokine-stimulating activity"
	150-183	REGION	/note="Binding to AGER/RAGE"
	161-215	REGION	/note="Disordered"
	76-94	COMPBIAS	/note="Basic and acidic residues"
	161-187	COMPBIAS	/note="Basic and acidic residues"
	188-215	COMPBIAS	/note="Acidic residues"
	1-10	BINDING	/ligand="heparin" /ligand_id="ChEBI:CHEBI:28304"
	1-215	DISORDER	predicted by DISOPRED

MONOMER

215

pdb_id a¹ identity[%]² description

2yrq A 100.0 HMGB1_HUMAN High mobility group protein B1

1.a¹:asym_id for the homologue. 2.identity[%]²:sequence identity between the query and the homologue.

HETERO

215 pdb_id contact mol homologue

a³ description a⁴ identity[%]⁵ Ncon⁶ description

2ly4[1] B P53_HUMAN Cellular tumor antigen p53[47 aa] A 100.0
/100.0 17
/17 HMGB1_HUMAN High mobility group protein B1

6cij[2] A RAG1_MOUSE V(D)J recombination-activating protein 1[614 aa] G 100.0
/100.0 3
/3 HMGB1_HUMAN High mobility group protein B1

6erp[4] G RPOM_HUMAN DNA-directed RNA polymerase, mitochondrial[1011 aa.. A 10.0
/29.3 10
/11 TFAM_HUMAN Transcription factor A, mitochondrial

3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

NUCLEOTIDE

215 pdb_id contact mol homologue

a³ description a⁴ identity[%]⁵ Ncon⁶ description

1ckt[1] A DNA (5'-D(*CP*CP*(5IU)P*CP*TP*CP*TP*GP*GP*AP*CP*CP.. C 100.0
/100.0 9
/9 HMG1_RAT HIGH MOBILITY GROUP 1 PROTEIN

1ckt[1] B DNA (5'-D(*GP*GP*AP*AP*GP*GP*TP*CP*CP*AP*GP*AP*GP*.. C 100.0
/100.0 10
/10 HMG1_RAT HIGH MOBILITY GROUP 1 PROTEIN

4qr9[2] C DNA (5'-D(*AP*TP*AP*TP*CP*GP*AP*TP*AP*T)-3') A 100.0
/100.0 11
/11 HMGB1_RAT High mobility group protein B1

4qr9[2] D DNA (5'-D(*AP*TP*AP*TP*CP*GP*AP*TP*AP*T)-3') A 100.0
/100.0 10
/11 HMGB1_RAT High mobility group protein B1

4qr9[1] F DNA (5'-D(*AP*TP*AP*TP*CP*GP*AP*TP*AP*T)-3') A 100.0
/100.0 2
/4 HMGB1_RAT High mobility group protein B1

5zdz[3] I DNA (39-MER) E 100.0
/100.0 10
/10 HMGB1_MOUSE HMGB1 A-B box

5zdz[3] K DNA chain M E 100.0
/100.0 11
/11 HMGB1_MOUSE HMGB1 A-B box

5ze2[1] H DNA (40-MER) E 100.0
/100.0 7
/7 HMGB1_MOUSE HMGB1 A-B box

5ze2[1] J DNA (40-MER) E 100.0
/100.0 10
/10 HMGB1_MOUSE HMGB1 A-B box

6cg0[1] H DNA (60-MER) K 100.0
/100.0 12
/12 HMGB1_HUMAN High mobility group protein B1

6cg0[1] J DNA (41-MER) K 100.0
/100.0 11
/11 HMGB1_HUMAN High mobility group protein B1

6cij[1] K DNA (41-MER) G 100.0
/100.0 12
/12 HMGB1_HUMAN High mobility group protein B1

6cij[1] F DNA (60-MER) G 100.0
/100.0 10
/10 HMGB1_HUMAN High mobility group protein B1

6cik[1] H Nicked 23RSS intermediate reverse strand E 100.0
/100.0 10
/10 HMGB1_HUMAN High mobility group protein B1

6cik[1] J Nicked 23RSS intermediate forward strand E 100.0
/100.0 6
/6 HMGB1_HUMAN High mobility group protein B1

6cil[1] H Intact 23RSS substrate reverse strand E 100.0
/100.0 5
/5 HMGB1_HUMAN High mobility group protein B1

6cim[1] I Intact 23RSS substrate reverse strand E 100.0
/100.0 10
/10 HMGB1_HUMAN High mobility group protein B1

6cim[1] J Intact 23RSS substrate forward strand E 100.0
/100.0 5
/5 HMGB1_HUMAN High mobility group protein B1

6oem[1] E DNA (57-MER) I 100.0
/100.0 7
/7 HMGB1_HUMAN High mobility group protein B1

6oen[1] E DNA (57-MER) I 100.0
/100.0 7
/7 HMGB1_HUMAN High mobility group protein B1

6oem[1] H DNA (57-MER) I 100.0
/100.0 7
/7 HMGB1_HUMAN High mobility group protein B1

6oen[2] H DNA (57-MER) I 100.0
/100.0 8
/8 HMGB1_HUMAN High mobility group protein B1

6oem[1] F DNA (46-MER) J 100.0
/100.0 8
/8 HMGB1_HUMAN High mobility group protein B1

6oen[2] F DNA (46-MER) J 100.0
/100.0 8
/8 HMGB1_HUMAN High mobility group protein B1

6oem[1] G DNA (46-MER) J 100.0
/100.0 5
/5 HMGB1_HUMAN High mobility group protein B1

6oen[2] G DNA (46-MER) J 100.0
/100.0 3
/3 HMGB1_HUMAN High mobility group protein B1

6oer[1] G DNA (57-MER) I 100.0
/100.0 5
/5 HMGB1_HORSE High mobility group protein B1

2gzk[1] A 5'-D(*GP*GP*GP*AP*TP*CP*TP*AP*AP*AP*CP*AP*AP*TP*GP.. C 71.4
/67.1 28
/33 Q6J415_HUMAN Q548R9_RAT Sex-determining region on Y / HMGB1

2gzk[1] B 5'-D(*GP*CP*AP*TP*TP*GP*TP*TP*TP*AP*GP*AP*TP*CP*CP.. C 75.0
/67.1 24
/26 Q6J415_HUMAN Q548R9_RAT Sex-determining region on Y / HMGB1

1qrv[1] A DNA (5'-D(*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3') C 46.7
/44.3 15
/16 HMGD_DROME HIGH MOBILITY GROUP PROTEIN D

1qrv[3] B DNA (5'-D(*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3') C 50.0
/44.3 8
/8 HMGD_DROME HIGH MOBILITY GROUP PROTEIN D

1j5n[1] A 5'-D(*GP*GP*GP*GP*TP*GP*AP*TP*TP*GP*TP*TP*CP*AP*G).. C 33.3
/45.9 12
/18 NHP6A_YEAST Nonhistone chromosomal protein 6A

1j5n[1] B 5'-D(*CP*TP*GP*AP*AP*CP*AP*AP*TP*CP*AP*CP*CP*CP*C).. C 61.5
/45.9 13
/16 NHP6A_YEAST Nonhistone chromosomal protein 6A

1e7j[1] B DNA (5'-D(*CP*GP*AP*TP*AP*TP*TP*AP*AP*GP*AP*GP*CP*.. A 33.3
/44.3 6
/6 HMGD_DROME HIGH MOBILITY GROUP PROTEIN D

1e7j[1] C DNA (5'-D(*GP*GP*CP*TP*CP*AP*AP*TP*AP*TP*CP*G)-3').. A 80.0
/44.3 5
/5 HMGD_DROME HIGH MOBILITY GROUP PROTEIN D

3nm9[15] G DNA 5'-D(*G*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3' A 50.0
/44.3 2
/2 HMGD_DROME High mobility group protein D

3nm9[1] P DNA 5'-D(*G*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3' B 0.0
/44.3 1
/1 HMGD_DROME High mobility group protein D

3nm9[1] N DNA 5'-D(*G*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3' B 100.0
/44.3 4
/4 HMGD_DROME High mobility group protein D

3nm9[2] N DNA 5'-D(*G*GP*CP*GP*AP*TP*AP*TP*CP*GP*C)-3' D 40.0
/44.3 5
/5 HMGD_DROME High mobility group protein D

5jh0[1] B DNA (5'-D(*AP*AP*TP*AP*AP*TP*AP*AP*AP*TP*TP*AP*TP*.. A 41.7
/30.3 12
/16 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jh0[2] E DNA (5'-D(*AP*AP*TP*AP*AP*TP*AP*AP*AP*TP*TP*AP*TP*.. A 44.4
/30.3 18
/18 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jh0[1] C DNA (5'-D(*TP*TP*AP*TP*AP*TP*TP*AP*TP*AP*TP*AP*AP*.. A 28.6
/30.3 7
/10 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jh0[2] F DNA (5'-D(*TP*TP*AP*TP*AP*TP*TP*AP*TP*AP*TP*AP*AP*.. A 50.0
/30.3 12
/12 ABF2_YEAST ARS-binding factor 2, mitochondrial

6jrp[4] B DNA (5'-D(*AP*TP*GP*AP*AP*TP*GP*AP*AP*AP*A)-3') A 54.5
/33.9 11
/12 CIC_HUMAN Protein capicua homolog

6jrp[4] C DNA (5'-D(*TP*TP*TP*TP*CP*AP*TP*TP*CP*AP*T)-3') A 22.2
/33.9 9
/11 CIC_HUMAN Protein capicua homolog

5jgh[3] B DNA (5'-D(*TP*TP*TP*AP*TP*TP*AP*TP*TP*TP*TP*AP*TP*.. A 50.0
/30.3 12
/17 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jgh[4] E DNA (5'-D(*TP*TP*TP*AP*TP*TP*AP*TP*TP*TP*TP*AP*TP*.. A 42.9
/30.3 14
/14 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jgh[3] C DNA (5'-D(*TP*TP*AP*TP*AP*TP*AP*AP*TP*AP*TP*AP*AP*.. A 20.0
/30.3 5
/7 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jgh[4] F DNA (5'-D(*TP*TP*AP*TP*AP*TP*AP*AP*TP*AP*TP*AP*AP*.. A 45.5
/30.3 11
/11 ABF2_YEAST ARS-binding factor 2, mitochondrial

4euw[1] B DNA (5'-D(*CP*TP*CP*TP*TP*TP*GP*AP*GP*AP*AP*G)-3').. A 36.4
/30.2 11
/12 SOX9_HUMAN Transcription factor SOX-9

4euw[1] C DNA (5'-D(*CP*TP*TP*CP*TP*CP*AP*AP*AP*GP*AP*G)-3').. A 33.3
/30.2 9
/12 SOX9_HUMAN Transcription factor SOX-9

4s2q[1] A DNA (5'-D(P*AP*GP*GP*CP*TP*TP*TP*GP*TP*TP*CP*TP*CP.. C 46.2
/30.2 13
/16 SOX9_MOUSE Transcription factor SOX-9

4s2q[1] B DNA (5'-D(P*AP*GP*GP*AP*GP*AP*AP*CP*AP*AP*AP*GP*CP.. C 37.5
/30.2 8
/12 SOX9_MOUSE Transcription factor SOX-9

3u2b[1] A DNA (5'-D(*GP*TP*CP*TP*CP*TP*AP*TP*TP*GP*TP*CP*CP*.. C 35.7
/30.0 14
/14 SOX4_MOUSE Transcription factor SOX-4

3u2b[1] B DNA (5'-D(*CP*CP*AP*GP*GP*AP*CP*AP*AP*TP*AP*GP*AP*.. C 27.3
/30.0 11
/15 SOX4_MOUSE Transcription factor SOX-4

3tq6[2] C DNA (5'-D(*TP*AP*AP*CP*AP*GP*TP*CP*AP*CP*CP*CP*CP*.. A 28.0
/28.6 25
/28 TFAM_HUMAN Transcription factor A, mitochondrial

3tq6[2] D DNA (5'-D(*GP*TP*TP*AP*GP*TP*TP*GP*GP*GP*GP*GP*GP*.. A 36.0
/28.6 25
/27 TFAM_HUMAN Transcription factor A, mitochondrial

4nod[4] C 5'-D(*TP*TP*GP*GP*GP*GP*TP*AP*TP*GP*GP*GP*GP*CP*TP.. A 35.0
/29.7 20
/23 TFAM_HUMAN Transcription factor A, mitochondrial

4nod[4] E 5'-D(*CP*CP*AP*AP*CP*CP*AP*AP*GP*CP*CP*CP*CP*AP*TP.. A 40.0
/29.7 20
/21 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[4] B DNA/RNA (5'-D(*TP*AP*AP*CP*AP*AP*AP*AP*AP*AP*TP*TP.. A 41.2
/29.7 17
/22 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[4] C DNA (5'-D(*TP*TP*TP*GP*GP*TP*GP*GP*AP*AP*AP*TP*TP*.. A 33.3
/29.7 27
/28 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[2] C DNA (5'-D(P*TP*AP*GP*CP*CP*TP*TP*TP*CP*TP*AP*TP*TP.. A 50.0
/28.6 16
/18 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[2] E DNA (5'-D(P*TP*AP*GP*CP*CP*TP*TP*TP*CP*TP*AP*TP*TP.. A 44.4
/28.6 9
/11 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[2] D DNA (5'-D(P*TP*AP*GP*CP*CP*TP*TP*TP*CP*TP*AP*TP*TP.. A 33.3
/28.6 12
/14 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[2] F DNA (5'-D(P*TP*AP*GP*CP*CP*TP*TP*TP*CP*TP*AP*TP*TP.. A 33.3
/28.6 12
/12 TFAM_HUMAN Transcription factor A, mitochondrial

7lbx[2] C DNA (5'-D(P*TP*TP*AP*AP*CP*AP*GP*TP*CP*AP*CP*CP*CP.. A 41.7
/29.7 24
/27 TFAM_HUMAN Transcription factor A, mitochondrial

7lbx[2] D DNA (5'-D(P*TP*TP*AP*GP*TP*TP*GP*GP*GP*GP*GP*GP*TP.. A 32.0
/29.7 25
/26 TFAM_HUMAN Transcription factor A, mitochondrial

6erp[2] B Non-Template DNA A 37.5
/29.3 24
/24 TFAM_HUMAN Transcription factor A, mitochondrial

6erp[2] C Template DNA A 42.9
/29.3 21
/24 TFAM_HUMAN Transcription factor A, mitochondrial

6erq[2] B Non-Template DNA A 33.3
/29.3 24
/24 TFAM_HUMAN Transcription factor A, mitochondrial

6erq[2] C Template DNA A 55.6
/29.3 18
/21 TFAM_HUMAN Transcription factor A, mitochondrial

4nnu[2] C DNA1 A 40.0
/28.6 25
/30 TFAM_HUMAN Transcription factor A, mitochondrial

4nnu[2] E DNA2 A 38.1
/28.6 21
/22 TFAM_HUMAN Transcription factor A, mitochondrial

4nnu[2] F DNA2 A 33.3
/28.6 3
/3 TFAM_HUMAN Transcription factor A, mitochondrial

6hb4[4] B DNA (5'*CP*TP*GP*TP*GP*CP*AP*GP*AP*CP*AP*TP*TP*CP*.. A 36.7
/28.9 30
/33 TFAM_HUMAN Transcription factor A, mitochondrial

6hb4[4] C DNA (5'-D(*TP*AP*AP*CP*AP*AP*TP*TP*GP*AP*AP*TP*GP*.. A 40.0
/28.9 20
/21 TFAM_HUMAN Transcription factor A, mitochondrial

3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

METAL

215 pdb_id contact mol homologue

a³ description a⁴ identity[%]⁵ Ncon⁶ description

1qrv[1] E NA
SODIUM ION[1 atoms] C 0.0
/44.3 1
/1 HMGD_DROME HIGH MOBILITY GROUP PROTEIN D

3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

HOMO

215 pdb_id contact mol homologue

a³ description a⁴ identity[%]⁵ Ncon⁶ description

4qr9[2] B HMGB1_RAT High mobility group protein B1[75 aa] A 100.0
/100.0 5
/5 HMGB1_RAT High mobility group protein B1

3nm9[1] E HMGD_DROME High mobility group protein D[73 aa] B 75.0
/44.3 4
/4 HMGD_DROME High mobility group protein D

3nm9[4] F HMGD_DROME High mobility group protein D[73 aa] B 66.7
/44.3 6
/6 HMGD_DROME High mobility group protein D

3nm9[1] B HMGD_DROME High mobility group protein D[73 aa] E 75.0
/44.3 8
/8 HMGD_DROME High mobility group protein D

4nnu[2] B TFAM_HUMAN Transcription factor A, mitochondrial[192 aa] A 66.7
/28.6 3
/13 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] B TFAM_HUMAN Transcription factor A, mitochondrial[190 aa] A 50.0
/28.6 4
/10 TFAM_HUMAN Transcription factor A, mitochondrial

3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

PRECIPITANT

215 pdb_id contact mol homologue

a³ description a⁴ identity[%]⁵ Ncon⁶ description

1hsm[2] B BME
BETA-MERCAPTOETHANOL[4 atoms] A 100.0
/100.0 4
/4 HMG1_CRIGR HIGH MOBILITY GROUP PROTEIN 1

5jgh[1] M ACT
ACETATE ION[4 atoms] G 50.0
/30.3 4
/4 ABF2_YEAST ARS-binding factor 2, mitochondrial

5jgh[1] N ACT
ACETATE ION[4 atoms] G 100.0
/30.3 1
/1 ABF2_YEAST ARS-binding factor 2, mitochondrial

3tq6[1] G 1PE
PENTAETHYLENE GLYCOL[16 atoms] B 50.0
/29.7 2
/6 TFAM_HUMAN Transcription factor A, mitochondrial

6hb4[5] O 1PE
PENTAETHYLENE GLYCOL[16 atoms] A 100.0
/28.9 1
/3 TFAM_HUMAN Transcription factor A, mitochondrial

6hb4[2] Q 1PE
PENTAETHYLENE GLYCOL[16 atoms] D 0.0
/28.6 1
/5 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[1] M TLA
L(+)-TARTARIC ACID[10 atoms] A 0.0
/29.7 1
/1 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[1] N TLA
L(+)-TARTARIC ACID[10 atoms] A 33.3
/29.7 3
/3 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[1] O TLA
L(+)-TARTARIC ACID[10 atoms] A 0.0
/29.7 3
/3 TFAM_HUMAN Transcription factor A, mitochondrial

6hc3[2] Q TLA
L(+)-TARTARIC ACID[10 atoms] D 0.0
/29.7 2
/3 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] H EDO
1,2-ETHANEDIOL[4 atoms] A 0.0
/28.6 3
/4 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] G EDO
1,2-ETHANEDIOL[4 atoms] B 100.0
/29.7 1
/3 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] K EDO
1,2-ETHANEDIOL[4 atoms] B 0.0
/29.7 2
/2 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] L EDO
1,2-ETHANEDIOL[4 atoms] B 33.3
/29.7 3
/3 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] O EDO
1,2-ETHANEDIOL[4 atoms] B 100.0
/29.7 2
/2 TFAM_HUMAN Transcription factor A, mitochondrial

7lbx[1] J EDO
1,2-ETHANEDIOL[4 atoms] B 0.0
/29.7 2
/2 TFAM_HUMAN Transcription factor A, mitochondrial

7lbx[1] K EDO
1,2-ETHANEDIOL[4 atoms] B 0.0
/29.7 2
/3 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] M PEG
DI(HYDROXYETHYL)ETHER[7 atoms] B 0.0
/29.7 2
/2 TFAM_HUMAN Transcription factor A, mitochondrial

7lbw[1] N PEG
DI(HYDROXYETHYL)ETHER[7 atoms] B 50.0
/29.7 2
/5 TFAM_HUMAN Transcription factor A, mitochondrial

6hb4[2] M GOL
GLYCEROL[6 atoms] A 50.0
/28.9 4
/4 TFAM_HUMAN Transcription factor A, mitochondrial

3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

MONOMER
215
	pdb_id	a¹	identity[%]²	description
	2yrq	A	100.0	HMGB1_HUMAN High mobility group protein B1
	1.a¹:asym_id for the homologue. 2.identity[%]²:sequence identity between the query and the homologue.

HETERO
215	pdb_id	contact mol		homologue
	pdb_id	a³	description	a⁴	identity[%]⁵	Ncon⁶	description
	2ly4[1]	B	P53_HUMAN Cellular tumor antigen p53[47 aa]	A	100.0 /100.0	17 /17	HMGB1_HUMAN High mobility group protein B1
	6cij[2]	A	RAG1_MOUSE V(D)J recombination-activating protein 1[614 aa]	G	100.0 /100.0	3 /3	HMGB1_HUMAN High mobility group protein B1
	6erp[4]	G	RPOM_HUMAN DNA-directed RNA polymerase, mitochondrial[1011 aa..	A	10.0 /29.3	10 /11	TFAM_HUMAN Transcription factor A, mitochondrial
	3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.
NUCLEOTIDE
215	pdb_id	contact mol		homologue
	pdb_id	a³	description	a⁴	identity[%]⁵	Ncon⁶	description
	1ckt[1]	A	DNA (5'-D(CPCP(5IU)PCPTPCPTPGPGPAPCPCP..	C	100.0 /100.0	9 /9	HMG1_RAT HIGH MOBILITY GROUP 1 PROTEIN
	1ckt[1]	B	DNA (5'-D(GPGPAPAPGPGPTPCPCPAPGPAPGP..	C	100.0 /100.0	10 /10	HMG1_RAT HIGH MOBILITY GROUP 1 PROTEIN
	4qr9[2]	C	DNA (5'-D(APTPAPTPCPGPAPTPAPT)-3')	A	100.0 /100.0	11 /11	HMGB1_RAT High mobility group protein B1
	4qr9[2]	D	DNA (5'-D(APTPAPTPCPGPAPTPAPT)-3')	A	100.0 /100.0	10 /11	HMGB1_RAT High mobility group protein B1
	4qr9[1]	F	DNA (5'-D(APTPAPTPCPGPAPTPAPT)-3')	A	100.0 /100.0	2 /4	HMGB1_RAT High mobility group protein B1
	5zdz[3]	I	DNA (39-MER)	E	100.0 /100.0	10 /10	HMGB1_MOUSE HMGB1 A-B box
	5zdz[3]	K	DNA chain M	E	100.0 /100.0	11 /11	HMGB1_MOUSE HMGB1 A-B box
	5ze2[1]	H	DNA (40-MER)	E	100.0 /100.0	7 /7	HMGB1_MOUSE HMGB1 A-B box
	5ze2[1]	J	DNA (40-MER)	E	100.0 /100.0	10 /10	HMGB1_MOUSE HMGB1 A-B box
	6cg0[1]	H	DNA (60-MER)	K	100.0 /100.0	12 /12	HMGB1_HUMAN High mobility group protein B1
	6cg0[1]	J	DNA (41-MER)	K	100.0 /100.0	11 /11	HMGB1_HUMAN High mobility group protein B1
	6cij[1]	K	DNA (41-MER)	G	100.0 /100.0	12 /12	HMGB1_HUMAN High mobility group protein B1
	6cij[1]	F	DNA (60-MER)	G	100.0 /100.0	10 /10	HMGB1_HUMAN High mobility group protein B1
	6cik[1]	H	Nicked 23RSS intermediate reverse strand	E	100.0 /100.0	10 /10	HMGB1_HUMAN High mobility group protein B1
	6cik[1]	J	Nicked 23RSS intermediate forward strand	E	100.0 /100.0	6 /6	HMGB1_HUMAN High mobility group protein B1
	6cil[1]	H	Intact 23RSS substrate reverse strand	E	100.0 /100.0	5 /5	HMGB1_HUMAN High mobility group protein B1
	6cim[1]	I	Intact 23RSS substrate reverse strand	E	100.0 /100.0	10 /10	HMGB1_HUMAN High mobility group protein B1
	6cim[1]	J	Intact 23RSS substrate forward strand	E	100.0 /100.0	5 /5	HMGB1_HUMAN High mobility group protein B1
	6oem[1]	E	DNA (57-MER)	I	100.0 /100.0	7 /7	HMGB1_HUMAN High mobility group protein B1
	6oen[1]	E	DNA (57-MER)	I	100.0 /100.0	7 /7	HMGB1_HUMAN High mobility group protein B1
	6oem[1]	H	DNA (57-MER)	I	100.0 /100.0	7 /7	HMGB1_HUMAN High mobility group protein B1
	6oen[2]	H	DNA (57-MER)	I	100.0 /100.0	8 /8	HMGB1_HUMAN High mobility group protein B1
	6oem[1]	F	DNA (46-MER)	J	100.0 /100.0	8 /8	HMGB1_HUMAN High mobility group protein B1
	6oen[2]	F	DNA (46-MER)	J	100.0 /100.0	8 /8	HMGB1_HUMAN High mobility group protein B1
	6oem[1]	G	DNA (46-MER)	J	100.0 /100.0	5 /5	HMGB1_HUMAN High mobility group protein B1
	6oen[2]	G	DNA (46-MER)	J	100.0 /100.0	3 /3	HMGB1_HUMAN High mobility group protein B1
	6oer[1]	G	DNA (57-MER)	I	100.0 /100.0	5 /5	HMGB1_HORSE High mobility group protein B1
	2gzk[1]	A	5'-D(GPGPGPAPTPCPTPAPAPAPCPAPAPTP*GP..	C	71.4 /67.1	28 /33	Q6J415_HUMAN Q548R9_RAT Sex-determining region on Y / HMGB1
	2gzk[1]	B	5'-D(GPCPAPTPTPGPTPTPTPAPGPAPTPCP*CP..	C	75.0 /67.1	24 /26	Q6J415_HUMAN Q548R9_RAT Sex-determining region on Y / HMGB1
	1qrv[1]	A	DNA (5'-D(GPCPGPAPTPAPTPCPGPC)-3')	C	46.7 /44.3	15 /16	HMGD_DROME HIGH MOBILITY GROUP PROTEIN D
	1qrv[3]	B	DNA (5'-D(GPCPGPAPTPAPTPCPGPC)-3')	C	50.0 /44.3	8 /8	HMGD_DROME HIGH MOBILITY GROUP PROTEIN D
	1j5n[1]	A	5'-D(GPGPGPGPTPGPAPTPTPGPTPTPCPAP*G)..	C	33.3 /45.9	12 /18	NHP6A_YEAST Nonhistone chromosomal protein 6A
	1j5n[1]	B	5'-D(CPTPGPAPAPCPAPAPTPCPAPCPCPCP*C)..	C	61.5 /45.9	13 /16	NHP6A_YEAST Nonhistone chromosomal protein 6A
	1e7j[1]	B	DNA (5'-D(CPGPAPTPAPTPTPAPAPGPAPGPCP..	A	33.3 /44.3	6 /6	HMGD_DROME HIGH MOBILITY GROUP PROTEIN D
	1e7j[1]	C	DNA (5'-D(GPGPCPTPCPAPAPTPAPTPCPG)-3')..	A	80.0 /44.3	5 /5	HMGD_DROME HIGH MOBILITY GROUP PROTEIN D
	3nm9[15]	G	DNA 5'-D(GGPCPGPAPTPAPTPCPGP*C)-3'	A	50.0 /44.3	2 /2	HMGD_DROME High mobility group protein D
	3nm9[1]	P	DNA 5'-D(GGPCPGPAPTPAPTPCPGP*C)-3'	B	0.0 /44.3	1 /1	HMGD_DROME High mobility group protein D
	3nm9[1]	N	DNA 5'-D(GGPCPGPAPTPAPTPCPGP*C)-3'	B	100.0 /44.3	4 /4	HMGD_DROME High mobility group protein D
	3nm9[2]	N	DNA 5'-D(GGPCPGPAPTPAPTPCPGP*C)-3'	D	40.0 /44.3	5 /5	HMGD_DROME High mobility group protein D
	5jh0[1]	B	DNA (5'-D(APAPTPAPAPTPAPAPAPTPTPAPTP..	A	41.7 /30.3	12 /16	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jh0[2]	E	DNA (5'-D(APAPTPAPAPTPAPAPAPTPTPAPTP..	A	44.4 /30.3	18 /18	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jh0[1]	C	DNA (5'-D(TPTPAPTPAPTPTPAPTPAPTPAPAP..	A	28.6 /30.3	7 /10	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jh0[2]	F	DNA (5'-D(TPTPAPTPAPTPTPAPTPAPTPAPAP..	A	50.0 /30.3	12 /12	ABF2_YEAST ARS-binding factor 2, mitochondrial
	6jrp[4]	B	DNA (5'-D(APTPGPAPAPTPGPAPAPAP*A)-3')	A	54.5 /33.9	11 /12	CIC_HUMAN Protein capicua homolog
	6jrp[4]	C	DNA (5'-D(TPTPTPTPCPAPTPTPCPAP*T)-3')	A	22.2 /33.9	9 /11	CIC_HUMAN Protein capicua homolog
	5jgh[3]	B	DNA (5'-D(TPTPTPAPTPTPAPTPTPTPTPAPTP..	A	50.0 /30.3	12 /17	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jgh[4]	E	DNA (5'-D(TPTPTPAPTPTPAPTPTPTPTPAPTP..	A	42.9 /30.3	14 /14	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jgh[3]	C	DNA (5'-D(TPTPAPTPAPTPAPAPTPAPTPAPAP..	A	20.0 /30.3	5 /7	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jgh[4]	F	DNA (5'-D(TPTPAPTPAPTPAPAPTPAPTPAPAP..	A	45.5 /30.3	11 /11	ABF2_YEAST ARS-binding factor 2, mitochondrial
	4euw[1]	B	DNA (5'-D(CPTPCPTPTPTPGPAPGPAPAPG)-3')..	A	36.4 /30.2	11 /12	SOX9_HUMAN Transcription factor SOX-9
	4euw[1]	C	DNA (5'-D(CPTPTPCPTPCPAPAPAPGPAPG)-3')..	A	33.3 /30.2	9 /12	SOX9_HUMAN Transcription factor SOX-9
	4s2q[1]	A	DNA (5'-D(PAPGPGPCPTPTPTPGPTPTPCPTP*CP..	C	46.2 /30.2	13 /16	SOX9_MOUSE Transcription factor SOX-9
	4s2q[1]	B	DNA (5'-D(PAPGPGPAPGPAPAPCPAPAPAPGP*CP..	C	37.5 /30.2	8 /12	SOX9_MOUSE Transcription factor SOX-9
	3u2b[1]	A	DNA (5'-D(GPTPCPTPCPTPAPTPTPGPTPCPCP..	C	35.7 /30.0	14 /14	SOX4_MOUSE Transcription factor SOX-4
	3u2b[1]	B	DNA (5'-D(CPCPAPGPGPAPCPAPAPTPAPGPAP..	C	27.3 /30.0	11 /15	SOX4_MOUSE Transcription factor SOX-4
	3tq6[2]	C	DNA (5'-D(TPAPAPCPAPGPTPCPAPCPCPCPCP..	A	28.0 /28.6	25 /28	TFAM_HUMAN Transcription factor A, mitochondrial
	3tq6[2]	D	DNA (5'-D(GPTPTPAPGPTPTPGPGPGPGPGPGP..	A	36.0 /28.6	25 /27	TFAM_HUMAN Transcription factor A, mitochondrial
	4nod[4]	C	5'-D(TPTPGPGPGPGPTPAPTPGPGPGPGPCP*TP..	A	35.0 /29.7	20 /23	TFAM_HUMAN Transcription factor A, mitochondrial
	4nod[4]	E	5'-D(CPCPAPAPCPCPAPAPGPCPCPCPCPAP*TP..	A	40.0 /29.7	20 /21	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[4]	B	DNA/RNA (5'-D(TPAPAPCPAPAPAPAPAPAPTPTP..	A	41.2 /29.7	17 /22	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[4]	C	DNA (5'-D(TPTPTPGPGPTPGPGPAPAPAPTPTP..	A	33.3 /29.7	27 /28	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[2]	C	DNA (5'-D(PTPAPGPCPCPTPTPTPCPTPAPTP*TP..	A	50.0 /28.6	16 /18	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[2]	E	DNA (5'-D(PTPAPGPCPCPTPTPTPCPTPAPTP*TP..	A	44.4 /28.6	9 /11	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[2]	D	DNA (5'-D(PTPAPGPCPCPTPTPTPCPTPAPTP*TP..	A	33.3 /28.6	12 /14	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[2]	F	DNA (5'-D(PTPAPGPCPCPTPTPTPCPTPAPTP*TP..	A	33.3 /28.6	12 /12	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbx[2]	C	DNA (5'-D(PTPTPAPAPCPAPGPTPCPAPCPCP*CP..	A	41.7 /29.7	24 /27	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbx[2]	D	DNA (5'-D(PTPTPAPGPTPTPGPGPGPGPGPGP*TP..	A	32.0 /29.7	25 /26	TFAM_HUMAN Transcription factor A, mitochondrial
	6erp[2]	B	Non-Template DNA	A	37.5 /29.3	24 /24	TFAM_HUMAN Transcription factor A, mitochondrial
	6erp[2]	C	Template DNA	A	42.9 /29.3	21 /24	TFAM_HUMAN Transcription factor A, mitochondrial
	6erq[2]	B	Non-Template DNA	A	33.3 /29.3	24 /24	TFAM_HUMAN Transcription factor A, mitochondrial
	6erq[2]	C	Template DNA	A	55.6 /29.3	18 /21	TFAM_HUMAN Transcription factor A, mitochondrial
	4nnu[2]	C	DNA1	A	40.0 /28.6	25 /30	TFAM_HUMAN Transcription factor A, mitochondrial
	4nnu[2]	E	DNA2	A	38.1 /28.6	21 /22	TFAM_HUMAN Transcription factor A, mitochondrial
	4nnu[2]	F	DNA2	A	33.3 /28.6	3 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	6hb4[4]	B	DNA (5'CPTPGPTPGPCPAPGPAPCPAPTPTPCP*..	A	36.7 /28.9	30 /33	TFAM_HUMAN Transcription factor A, mitochondrial
	6hb4[4]	C	DNA (5'-D(TPAPAPCPAPAPTPTPGPAPAPTPGP..	A	40.0 /28.9	20 /21	TFAM_HUMAN Transcription factor A, mitochondrial
	3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.
METAL
215	pdb_id	contact mol		homologue
	pdb_id	a³	description	a⁴	identity[%]⁵	Ncon⁶	description
	1qrv[1]	E	NA SODIUM ION[1 atoms]	C	0.0 /44.3	1 /1	HMGD_DROME HIGH MOBILITY GROUP PROTEIN D
	3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.
HOMO
215	pdb_id	contact mol		homologue
	pdb_id	a³	description	a⁴	identity[%]⁵	Ncon⁶	description
	4qr9[2]	B	HMGB1_RAT High mobility group protein B1[75 aa]	A	100.0 /100.0	5 /5	HMGB1_RAT High mobility group protein B1
	3nm9[1]	E	HMGD_DROME High mobility group protein D[73 aa]	B	75.0 /44.3	4 /4	HMGD_DROME High mobility group protein D
	3nm9[4]	F	HMGD_DROME High mobility group protein D[73 aa]	B	66.7 /44.3	6 /6	HMGD_DROME High mobility group protein D
	3nm9[1]	B	HMGD_DROME High mobility group protein D[73 aa]	E	75.0 /44.3	8 /8	HMGD_DROME High mobility group protein D
	4nnu[2]	B	TFAM_HUMAN Transcription factor A, mitochondrial[192 aa]	A	66.7 /28.6	3 /13	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	B	TFAM_HUMAN Transcription factor A, mitochondrial[190 aa]	A	50.0 /28.6	4 /10	TFAM_HUMAN Transcription factor A, mitochondrial
	3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.
PRECIPITANT
215	pdb_id	contact mol		homologue
	pdb_id	a³	description	a⁴	identity[%]⁵	Ncon⁶	description
	1hsm[2]	B	BME BETA-MERCAPTOETHANOL[4 atoms]	A	100.0 /100.0	4 /4	HMG1_CRIGR HIGH MOBILITY GROUP PROTEIN 1
	5jgh[1]	M	ACT ACETATE ION[4 atoms]	G	50.0 /30.3	4 /4	ABF2_YEAST ARS-binding factor 2, mitochondrial
	5jgh[1]	N	ACT ACETATE ION[4 atoms]	G	100.0 /30.3	1 /1	ABF2_YEAST ARS-binding factor 2, mitochondrial
	3tq6[1]	G	1PE PENTAETHYLENE GLYCOL[16 atoms]	B	50.0 /29.7	2 /6	TFAM_HUMAN Transcription factor A, mitochondrial
	6hb4[5]	O	1PE PENTAETHYLENE GLYCOL[16 atoms]	A	100.0 /28.9	1 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	6hb4[2]	Q	1PE PENTAETHYLENE GLYCOL[16 atoms]	D	0.0 /28.6	1 /5	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[1]	M	TLA L(+)-TARTARIC ACID[10 atoms]	A	0.0 /29.7	1 /1	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[1]	N	TLA L(+)-TARTARIC ACID[10 atoms]	A	33.3 /29.7	3 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[1]	O	TLA L(+)-TARTARIC ACID[10 atoms]	A	0.0 /29.7	3 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	6hc3[2]	Q	TLA L(+)-TARTARIC ACID[10 atoms]	D	0.0 /29.7	2 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	H	EDO 1,2-ETHANEDIOL[4 atoms]	A	0.0 /28.6	3 /4	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	G	EDO 1,2-ETHANEDIOL[4 atoms]	B	100.0 /29.7	1 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	K	EDO 1,2-ETHANEDIOL[4 atoms]	B	0.0 /29.7	2 /2	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	L	EDO 1,2-ETHANEDIOL[4 atoms]	B	33.3 /29.7	3 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	O	EDO 1,2-ETHANEDIOL[4 atoms]	B	100.0 /29.7	2 /2	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbx[1]	J	EDO 1,2-ETHANEDIOL[4 atoms]	B	0.0 /29.7	2 /2	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbx[1]	K	EDO 1,2-ETHANEDIOL[4 atoms]	B	0.0 /29.7	2 /3	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	M	PEG DI(HYDROXYETHYL)ETHER[7 atoms]	B	0.0 /29.7	2 /2	TFAM_HUMAN Transcription factor A, mitochondrial
	7lbw[1]	N	PEG DI(HYDROXYETHYL)ETHER[7 atoms]	B	50.0 /29.7	2 /5	TFAM_HUMAN Transcription factor A, mitochondrial
	6hb4[2]	M	GOL GLYCEROL[6 atoms]	A	50.0 /28.9	4 /4	TFAM_HUMAN Transcription factor A, mitochondrial
	3.a³:asym_id for the contact molecule. 4.a⁴:asym_id for the template homologue. 5.identity[%]⁵:sequence identity between the query and the template homologue only for the contact residues. Number after the slash / is sequence identity for all the aligned region. 6.Ncon⁶:number of aligned contact residues for the query. Number after the slash / is number of contact residues in the template homologue.

Contact Molecules for Homologous Proteins

Summary Bars[0.0 %]

UniProt Feature Tables [P09429(HMGB1_HUMAN)]