A Structure-Based Classification and Analysis of Protein Domain Family Binding Sites and Their Interactions

Protein function annotation using protein domain family resources

Methods ◽

10.1016/j.ymeth.2015.09.029 ◽

2016 ◽

Vol 93 ◽

pp. 24-34 ◽

Cited By ~ 17

Author(s):

Sayoni Das ◽

Christine A. Orengo

Keyword(s):

Protein Function ◽

Protein Domain ◽

Domain Family ◽

Family Resources ◽

Function Annotation ◽

Protein Function Annotation ◽

Structures of apo- and ssDNA-bound YdbC from Lactococcus lactis uncover the function of protein domain family DUF2128 and expand the single-stranded DNA-binding domain proteome

Nucleic Acids Research ◽

10.1093/nar/gks1348 ◽

2013 ◽

Vol 41 (4) ◽

pp. 2756-2768 ◽

Cited By ~ 8

Author(s):

Paolo Rossi ◽

Christopher M. Barbieri ◽

James M. Aramini ◽

Elisabetta Bini ◽

Hsiau-Wei Lee ◽

...

Keyword(s):

Dna Binding ◽

Lactococcus Lactis ◽

Binding Domain ◽

Protein Domain ◽

Dna Binding Domain ◽

Domain Family ◽

Single Stranded Dna ◽

Solution NMR structures provide first structural coverage of the large protein domain family PF08369 and complementary structural coverage of dark operative protochlorophyllide oxidoreductase complexes

10.1007/s10969-013-9159-5 ◽

2013 ◽

Vol 14 (3) ◽

pp. 119-126

Author(s):

Surya V. S. R. K. Pulavarti ◽

Yunfen He ◽

Erik A. Feldmann ◽

Alexander Eletsky ◽

Thomas B. Acton ◽

...

Keyword(s):

Protein Domain ◽

Solution Nmr ◽

Protochlorophyllide Oxidoreductase ◽

Domain Family ◽

Large Protein ◽

Nmr Structures ◽

Protein Domain Family ◽

Structural Coverage

Solution NMR and X-ray crystal structures of Pseudomonas syringae Pspto_3016 from protein domain family PF04237 (DUF419) adopt a “double wing” DNA binding motif

10.1007/s10969-012-9140-8 ◽

2012 ◽

Vol 13 (3) ◽

pp. 155-162 ◽

Cited By ~ 6

Author(s):

Erik A. Feldmann ◽

Jayaraman Seetharaman ◽

Theresa A. Ramelot ◽

Scott Lew ◽

Li Zhao ◽

...

Keyword(s):

Dna Binding ◽

Crystal Structures ◽

Pseudomonas Syringae ◽

Protein Domain ◽

Solution Nmr ◽

Binding Motif ◽

Domain Family ◽

X Ray ◽

KBDOCK 2013: a spatial classification of 3D protein domain family interactions

Nucleic Acids Research ◽

10.1093/nar/gkt1199 ◽

2013 ◽

Vol 42 (D1) ◽

pp. D389-D395 ◽

Cited By ~ 15

Author(s):

Anisah W. Ghoorah ◽

Marie-Dominique Devignes ◽

Malika Smaïl-Tabbone ◽

David W. Ritchie

Keyword(s):

Protein Domain ◽

Family Interactions ◽

Domain Family ◽

Spatial Classification ◽

1H, 13C, and 15N Resonance Assignments for Escherichia coli ytfP, a Member of the Broadly Conserved UPF0131 Protein Domain Family

Journal of Biomolecular NMR ◽

10.1007/s10858-005-2597-z ◽

2005 ◽

Vol 33 (3) ◽

pp. 197-197 ◽

Cited By ~ 1

Author(s):

James M. Aramini ◽

G. V. T. Swapna ◽

Yuanpeng J. Huang ◽

P. K. Rajan ◽

Rong Xiao ◽

...

Keyword(s):

Escherichia Coli ◽

Resonance Assignments ◽

Protein Domain ◽

Domain Family ◽

PSI-2: Structural Genomics to Cover Protein Domain Family Space

Structure ◽

10.1016/j.str.2009.03.015 ◽

2009 ◽

Vol 17 (6) ◽

pp. 869-881 ◽

Cited By ~ 93

Author(s):

Benoît H. Dessailly ◽

Rajesh Nair ◽

Lukasz Jaroszewski ◽

J. Eduardo Fajardo ◽

Andrei Kouranov ◽

...

Keyword(s):

Structural Genomics ◽

Protein Domain ◽

Domain Family ◽

Solution NMR structures reveal a distinct architecture and provide first structures for protein domain family PF04536

10.1007/s10969-011-9122-2 ◽

2011 ◽

Vol 13 (1) ◽

pp. 9-14 ◽

Cited By ~ 7

Author(s):

Alexander Eletsky ◽

Thomas B. Acton ◽

Rong Xiao ◽

John K. Everett ◽

Gaetano T. Montelione ◽

...

Keyword(s):

Protein Domain ◽

Solution Nmr ◽

Domain Family ◽

Nmr Structures ◽

Three structural representatives of the PF06855 protein domain family from Staphyloccocus aureus and Bacillus subtilis have SAM domain-like folds and different functions

10.1007/s10969-012-9134-6 ◽

2012 ◽

Vol 13 (3) ◽

pp. 163-170 ◽

Cited By ~ 1

Author(s):

G. V. T. Swapna ◽

Paolo Rossi ◽

Alexander F. Montelione ◽

Jordi Benach ◽

Bomina Yu ◽

...

Keyword(s):

Bacillus Subtilis ◽

Protein Domain ◽

Domain Family ◽

Sam Domain ◽

Staphyloccocus Aureus ◽

Solution NMR structures reveal unique homodimer formation by a winged helix-turn-helix motif and provide first structures for protein domain family PF10771

10.1007/s10969-011-9121-3 ◽

2012 ◽

Vol 13 (1) ◽

pp. 1-7 ◽

Cited By ~ 2

Author(s):

Alexander Eletsky ◽

Donald Petrey ◽

Qiangfeng Cliff Zhang ◽

Hsiau-Wei Lee ◽

Thomas B. Acton ◽

...

Keyword(s):

Protein Domain ◽

Solution Nmr ◽

Domain Family ◽

Winged Helix ◽

Nmr Structures ◽