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 28271
95 % 2 6 10068 Flexibility: Low
Max RMSD: 7.1, Avg RMSD: 2.8
PDBFlex
90 % 2 6 9921
70 % 2 6 9474
50 % 4 10 4042
40 % 5 11 2638
30 % 5 11 2450
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 27988
95 % 1 3 24637
90 % 1 3 23785
70 % 1 3 21584
50 % 5 14 5140
40 % 5 15 4499
30 % 8 46 1218

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 4A3N 1 A TRANSCRIPTION FACTOR SOX-17 HMG-BOX, RESIDUES 68-136 9606
3 3U2B 3 C Transcription factor SOX-4 UNP residues 57-135 10090
4 4S2Q 3 D Transcription factor SOX-9 UNP residues 103-178 10090
5 1GT0 4 D TRANSCRIPTION FACTOR SOX-2 HMG DOMAIN RESIDUES 41-120 10090
6 3F27 3 D Transcription factor SOX-17 HMG box, residues 66-144 10090
7 2LE4 1 A Transcription factor SOX-2 HMG box DNA binding residues 39-118 9606
8 2YUL 1 A Transcription factor SOX-17 HMG (high mobility group) box 9606
9 1WZ6 1 A HMG-BOX transcription factor BBX HMG_box domain 10090
10 1O4X 4 B Transcription factor SOX-2 9606
11 1J46 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
12 1J47 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
13 1I11 1 A TRANSCRIPTION FACTOR SOX-5 HMG BOX 10090
14 1HRY 3 A HUMAN SRY 9606
15 1HRZ 3 A HUMAN SRY 9606