Sequence Similarity Clusters for the Entities in PDB 1GT0

Entity #1 | Chains: A
5'-D(*TP*TP*CP*TP*TP*TP*GP*TP*TP*TP* GP*GP*AP* TP*GP*CP*TP*AP*AP*TP*GP*GP*GP*A)-3' dna, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #2 | Chains: B
5'-D(*AP*TP*CP*CP*CP*AP*TP*TP*AP*GP* CP*AP*TP*CP*CP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3' dna, length: 24 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
Entity #3 | Chains: C
OCTAMER-BINDING TRANSCRIPTION FACTOR 1 protein, length: 159 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name Structural variation in cluster
100 % 1 2 27222
95 % 2 6 10042 Flexibility: Low
Max RMSD: 7.1, Avg RMSD: 2.8
PDBFlex
90 % 2 6 9901
70 % 2 6 9459
50 % 4 10 4038
40 % 5 11 2634
30 % 5 11 2451
Entity #4 | Chains: D
TRANSCRIPTION FACTOR SOX-2 protein, length: 80 (BLAST)
Sequence Similarity Cutoff Rank Chains in Cluster Cluster ID / Name
100 % 1 3 27946
95 % 1 3 24603
90 % 1 3 23755
70 % 1 3 21553
50 % 5 14 5135
40 % 5 15 4495
30 % 8 46 1222

Instructions

In the table for each entity, view a list of similar sequences by selecting the link associated with the percentage cutoff.



View more detailed documentation on the redundancy reduction and sequence clustering procedure used by RCSB PDB.

You can also use the structure comparison tool to compare any 2 given structures


ACTION - (A) Select for download / view details OR (B) Select two chains for comparison
Rank PDB ID Entity ID Chains Description Details Taxonomy EC Number
1 4Y60 1 C Transcription factor SOX-18 UNP RESIDUES 77-155 10090
2 4QR9 1 A, B High mobility group protein B1 Residues 8-81 10116
3 1QRV 2 A, B HIGH MOBILITY GROUP PROTEIN D RESIDUES 2-74 7227
4 4A3N 1 A TRANSCRIPTION FACTOR SOX-17 HMG-BOX, RESIDUES 68-136 9606
5 3U2B 3 C Transcription factor SOX-4 UNP residues 57-135 10090
6 1CKT 3 A HIGH MOBILITY GROUP 1 PROTEIN RESIDUES 8-78, DOMAIN A 10116
7 4S2Q 3 D Transcription factor SOX-9 UNP residues 103-178 10090
8 1GT0 4 D TRANSCRIPTION FACTOR SOX-2 HMG DOMAIN RESIDUES 41-120 10090
9 3F27 3 D Transcription factor SOX-17 HMG box, residues 66-144 10090
10 3NM9 1 A, D, G, J, M, P High mobility group protein D 7227
11 5VWE 1 A FACT complex subunit SSRP1 unp residues 551-617 9606
12 2RTU 1 A High mobility group protein B1 HMG box 1, UNP residues 1-84 9606
13 2LY4 1 A High mobility group protein B1 9606
14 2LHJ 1 A High mobility group protein homolog NHP1 5865
15 2LE4 1 A Transcription factor SOX-2 HMG box DNA binding residues 39-118 9606
16 2YUL 1 A Transcription factor SOX-17 HMG (high mobility group) box 9606
17 2EQZ 1 A High mobility group protein B3 HMG-box domain 9606
18 2YQI 1 A High mobility group protein B3 HMG-box domain 9606
19 2E6O 1 A HMG box-containing protein 1 HMG-box 9606
20 2CTO 1 A novel protein HMG box like domain 9606
21 2CRJ 1 A SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related HMG-BOX (residues 1-92) 10090
22 2CS1 1 A PMS1 protein homolog 1 HMG_box domain 9606
23 2CO9 1 A thymus high mobility group box protein TOX HMG box 10090
24 1WZ6 1 A HMG-BOX transcription factor BBX HMG_box domain 10090
25 1WXL 1 A Single-strand recognition protein residues 5-74 7227
26 1WGF 1 A Upstream Binding Factor 1 HMG box domain 10090
27 1V63 1 A Nucleolar transcription factor 1 HMG box domain 10090
28 1V64 1 A Nucleolar transcription factor 1 HMG box domain 10090
29 1O4X 4 B Transcription factor SOX-2 9606
30 1J3X 1 A High mobility group protein 2 N-TERMINAL DOMAIN 9823
31 1J3C 1 A High mobility group protein 2 C-TERMINAL DOMAIN, B domain 9823
32 1J3D 1 A High mobility group protein 2 C-TERMINAL DOMAIN, B domain 9823
33 1J46 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
34 1J47 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
35 1I11 1 A TRANSCRIPTION FACTOR SOX-5 HMG BOX 10090
36 1E7J 1 A HIGH MOBILITY GROUP PROTEIN D HMG-D DOMAIN 7227
37 1AAB 1 A HIGH MOBILITY GROUP PROTEIN FRAGMENT A (RESIDUES 1 - 83) 10116
38 1HRY 3 A HUMAN SRY 9606
39 1HRZ 3 A HUMAN SRY 9606
40 1HSM 1 A HIGH MOBILITY GROUP PROTEIN 1 10029
41 1HSN 1 A HIGH MOBILITY GROUP PROTEIN 1 10029
42 1NHM 1 A HIGH MOBILITY GROUP PROTEIN 1 10029
43 1NHN 1 A HIGH MOBILITY GROUP PROTEIN 1 10029
44 1HMA 1 A HMG-D 7227
45 1HMF 1 A HIGH MOBILITY GROUP PROTEIN FRAGMENT-B 10116
46 1HME 1 A HIGH MOBILITY GROUP PROTEIN FRAGMENT-B 10116