E. coli paired alignments

Multiple sequence alignments used in E. coli gene pair analysis. Each fasta file begins with the E. coli amino acid sequence pair, with other homologous sequences trimmed to match its length. For an interactive list, please visit: http://gremlin.bakerlab.org/cplx.php?mode=ecol

PDB file for D-methionine transport system

Predicted complex of the D-methionine transporter. It is an ATP-driven transport system that transports methionine. The PDB file was sampled using UniProt E. coli sequences of METI_ECOLI and METQ_ECOLI

PDB file for Tripartite efflux system

Predicted complex for the Tripartite efflux pump. This family of complexes spans both the inner and outer membrane, and are widely used in bacteria to pump toxic compounds out of the cell. The PDB file was modeled using E. coli sequences of MDTP_ECOLI and MDTN_ECOLI

PDB file for PFL Complex

Predicted complex of Pyruvate formate lyase-activating enzyme. Pyruvate formate-lyase (PFL) catalyzes the reaction of acetyl-CoA and formate from pyruvate and CoA in the Fermentation pathway. The PDB file was sampled using the E. coli sequences of PFLA_ECOLI and PFLB_ECOLI

PDB file for TRAP complex

The predicted complex of the tripartite ATP-independent periplasmic (TRAP) transporter. It is composed of three proteins: two integral membrane proteins YIAM and YIAN, and one periplasmic protein YIAO. The PDB file was sampled using UniProt E. coli sequences of YIAM_ECOLI, YIAN_ECOLI and YIAO_ECOLI

PDB benchmark alignments

Multiple sequence alignments used for the PDB benchmark set. Each fasta file begins with the PDB amino acid sequence pair, with other homologous sequences trimmed to match its length. For an interactive list, please visit: http://gremlin.bakerlab.org/cplx.php?mode=pd

PDB benchmark alignments NDX

Multiple sequence alignments used for the PDB benchmark set. This set is restricted to the NADH dehydrogenase complex. Each fasta file begins with the T. thermophilus amino acid sequence pair, with other homologous sequences trimmed to match its length. For an interactive list, please visit: http://gremlin.bakerlab.org/cplx.php?mode=nd

Models for 58 protein families predicted with Rosetta-GREMLIN

PDB files, contact maps and images of the predicted protein families. For an interactive version of the data and latest models please see: http://gremlin.bakerlab.org/structures.ph

Final models

Single model for each target

Top 30 models

Top 30 models across 30 iterations of hybrid of ab_v01+ab_v02 + map-align models