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 25994
95 % 2 6 9572 Flexibility: Low
Max RMSD: 7.1, Avg RMSD: 2.8
PDBFlex
90 % 2 6 9457
70 % 2 6 9051
50 % 4 10 3888
40 % 5 11 2527
30 % 5 11 2361
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 26671
95 % 1 3 22671
90 % 1 3 21961
70 % 1 3 20070
50 % 5 14 4932
40 % 5 15 4322
30 % 8 46 1160

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 1O4X 4 B Transcription factor SOX-2 9606
10 1J46 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
11 1J47 3 A SEX-DETERMINING REGION Y PROTEIN HMG-BOX DOMAIN 9606
12 1I11 1 A TRANSCRIPTION FACTOR SOX-5 HMG BOX 10090
13 1HRY 3 A HUMAN SRY 9606
14 1HRZ 3 A HUMAN SRY 9606