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1vkw
Table of contents
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| Google Scholar output for 1vkw | |
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| 1. Comparative modeling for protein structure prediction | |
| K Ginalski - Current opinion in structural biology, 2006 - Elsevier | |
| 2. The Buccaneer software for automated model building. 1. Tracing protein chains | |
| K Cowtan - Acta Crystallographica Section D: Biological , 2006 - scripts.iucr.org | |
| 3. Generalized protein structure prediction based on combination of fold_recognition with de novo folding and evaluation of models | |
| A Koli_ski, JM Bujnicki - Proteins: Structure, Function, and , 2005 - Wiley Online Library | |
| 4. Physics-based protein-structure prediction using a hierarchical protocol based on the UNRES force field: Assessment in two blind tests | |
| S O_dziej, C Czaplewski, A Liwo - Proceedings of the , 2005 - National Acad Sciences | |
| 5. Comparative modeling in CASP6 using consensus approach to template selection, sequence_structure alignment, and structure assessment | |
| _ Venclovas, M Margelevi_ius - Proteins: Structure, Function, , 2005 - Wiley Online Library | |
| 6. Domain definition and target classification for CASP6 | |
| M Tress, CH Tai, G Wang, I Ezkurdia - PROTEINS: , 2005 - Wiley Online Library | |
| 7. Fast and accurate algorithms for protein side-chain packing | |
| J Xu, B Berger - Journal of the ACM (JACM), 2006 - dl.acm.org | |
| 8. Protein structure prediction using a variety of profile libraries and 3D verification | |
| K Tomii, T Hirokawa, C Motono - : Structure, Function, and , 2005 - Wiley Online Library | |
| 9. Protein structure prediction in CASP6 using CHIMERA and FAMS | |
| M Takeda_Shitaka, G Terashi, D Takaya - PROTEINS: , 2005 - Wiley Online Library | |
| 10. Efficient protein tertiary structure retrievals and classifications using content based comparison algorithms | |
| PH Chi - 2007 - mospace.umsystem.edu | |
| 11. Crystal Structure of a Minimal Nitroreductase, ydjA, from Escherichia coli K12 with and without FMN Cofactor | |
| JW Choi, J Lee, K Nishi, YS Kim, CH Jung - Journal of molecular , 2008 - Elsevier | |
| 12. Prediction of protein domain boundaries from statistics of appearance of amino acid residues | |
| OV Galzitskaya, NV Dovidchenko, MY Lobanov - Molecular Biology, 2006 - Springer | |
| 13. Protein structure prediction based on the sliced lattice model | |
| CC Wang, CB Yang, HY Ann - 2008 Conference on , 2005 - etd.lib.nsysu.edu.tw | |
| 14. Coulomb energies of protein-protein complexes with monopole-free charge distributions | |
| M Das, G Basu - Journal of Molecular Graphics and Modelling, 2009 - Elsevier | |
| 15. Prediction of Protein Backbone Based on the Sliced Lattice Model | |
| CC Wang, CB Yang, HY Ann, HY Chang - 2008 - csie.npu.edu.tw | |
| 16. Protein loop prediction by fragment assembly | |
| Z Liu - Masters Abstracts International, 2007 - el.trc.gov.om | |
| 17. Protein Structure Prediction Using a Profile-Profile Comparison Method: FORTE | |
| _____ - ____, 2006 - J-STAGE | |
| 18. Cysteine 38 Holds the Key to NF-_B Activation | |
| ND Perkins - Molecular Cell, 2012 - Elsevier | |
| 19. Crystal Structure of a Minimal Nitroreductase | |
| CH Jung, JS Kim - J. Mol. Biol, 2008 - ws.ajou.ac.kr | |
Protein Summary
Gene TM1586 from Thermotoga maritima encodes the protein NP_229386 that shows a weak hit with the PFAM nitroreductase family (PF00881). Analysis of its genomic neighbourhood detects the presence (score 0.87) of a putative glycerate kinase (TM1585).
SCOP classifies 1vkw in the alpha+beta class, FMN-dependent nitroreductase-like superfamily, putative nitroreductase TM1586 family. Using 1vkw as query, Dali top hits are with nitroreductase-like proteins such as: PDB:3ge6 (Z-scr=12), PDB:1nec (Z-scr=12), PDB:1oon (Z-scr=12), PDB:1icv (Z-scr=11), and PDB:1zch (Z-scr=10).
1vkw contains an internal duplication of the minimal FMN-dependent nitroreductase-like fold, mimicking a usual dimeric arrangement of a standard NADH oxidase/flavin reductases, but only one of the units has conserved active site residues.
1vkw was the first structure solved representative of a large (>1000 proteins) sub-family of PF00881. The second, B. subtilis YcnD (PDB:1zch) was solved a year later (Morokutti, A., Lyskowski, A., Sollner, S., Pointner, E., Fitzpatrick, T.B., Kratky, C., Gruber, K., Macheroux, P. (2005) Structure and Function of YcnD from Bacillus subtilis, a Flavin-Containing Oxidoreductase. Biochemistry 44: 13724-13733 )
Ligand Summary
References
Reviews
References
No references found.
