-
1
-
-
0029651191
-
A functionally diverse enzyme superfamily that abstracts the alpha protons of carboxylic acids
-
P.C. Babbitt A functionally diverse enzyme superfamily that abstracts the alpha protons of carboxylic acids Science 267 1995 1159 1161
-
(1995)
Science
, vol.267
, pp. 1159-1161
-
-
Babbitt, P.C.1
-
2
-
-
0034930561
-
Evolutionary lines of cysteine peptidases
-
A.J. Barrett, and N.D. Rawlings Evolutionary lines of cysteine peptidases Biol. Chem. 382 2001 727 733
-
(2001)
Biol. Chem.
, vol.382
, pp. 727-733
-
-
Barrett, A.J.1
Rawlings, N.D.2
-
3
-
-
9144257886
-
The Pfam protein families database
-
A. Bateman The Pfam protein families database Nucleic Acids Res. 32 2004 D138 D141
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Bateman, A.1
-
4
-
-
0036054290
-
X-ray crystal structure of Staphylococcus aureus FemA
-
T.E. Benson X-ray crystal structure of Staphylococcus aureus FemA Structure 10 2002 1107 1115
-
(2002)
Structure
, vol.10
, pp. 1107-1115
-
-
Benson, T.E.1
-
5
-
-
0024460146
-
FemA, a host-mediated factor essential for methicillin resistance in Staphylococcus aureus: Molecular cloning and characterization
-
B. Berger-Bachi FemA, a host-mediated factor essential for methicillin resistance in Staphylococcus aureus: molecular cloning and characterization Mol. Gen. Genet. 219 1989 263 269
-
(1989)
Mol. Gen. Genet.
, vol.219
, pp. 263-269
-
-
Berger-Bachi, B.1
-
6
-
-
0033954256
-
The Protein Data Bank
-
H.M. Berman The Protein Data Bank Nucleic Acids Res. 28 2000 235 242
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
-
7
-
-
23144444979
-
Protein structure prediction servers at University College London
-
K. Bryson Protein structure prediction servers at University College London Nucleic Acids Res. 33 2005 W36 W38
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Bryson, K.1
-
8
-
-
56549119570
-
Turning a hobby into a job: How duplicated genes find new functions
-
G.C. Conant, and K.H. Wolfe Turning a hobby into a job: how duplicated genes find new functions Nat. Rev. Genet. 9 2008 938 950
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 938-950
-
-
Conant, G.C.1
Wolfe, K.H.2
-
10
-
-
66549096455
-
Exploiting structural classifications for function prediction: Towards a domain grammar for protein function
-
B.H. Dessailly Exploiting structural classifications for function prediction: towards a domain grammar for protein function Curr. Opin. Struct. Biol. 19 2009 349 356
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 349-356
-
-
Dessailly, B.H.1
-
11
-
-
2942613843
-
Structural basis for the mechanism of Ca(2+) activation of the di-heme cytochrome c peroxidase from Pseudomonas nautica 617
-
J.M. Dias Structural basis for the mechanism of Ca(2+) activation of the di-heme cytochrome c peroxidase from Pseudomonas nautica 617 Structure 12 2004 961 973
-
(2004)
Structure
, vol.12
, pp. 961-973
-
-
Dias, J.M.1
-
12
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
R.C. Edgar MUSCLE: multiple sequence alignment with high accuracy and high throughput Nucleic Acids Res. 32 2004 1792 1797
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
13
-
-
33644876020
-
Pfam: Clans, web tools and services
-
R.D. Finn Pfam: clans, web tools and services Nucleic Acids Res. 34 2006 D247 D251
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Finn, R.D.1
-
14
-
-
0347383758
-
Modeller: Generation and refinement of homology-based protein structure models
-
A. Fiser, and A. Sali Modeller: generation and refinement of homology-based protein structure models Methods Enzymol. 374 2003 461 491
-
(2003)
Methods Enzymol.
, vol.374
, pp. 461-491
-
-
Fiser, A.1
Sali, A.2
-
15
-
-
0029619259
-
Knowledge-based protein secondary structure assignment
-
D. Frishman, and P. Argos Knowledge-based protein secondary structure assignment Proteins 23 1995 566 579
-
(1995)
Proteins
, vol.23
, pp. 566-579
-
-
Frishman, D.1
Argos, P.2
-
16
-
-
0035082495
-
Identification of related proteins with weak sequence identity using secondary structure information
-
C. Geourjon Identification of related proteins with weak sequence identity using secondary structure information Protein Sci. 10 2001 788 797
-
(2001)
Protein Sci.
, vol.10
, pp. 788-797
-
-
Geourjon, C.1
-
17
-
-
0032176603
-
Mechanistically diverse enzyme superfamilies: The importance of chemistry in the evolution of catalysis
-
J.A. Gerlt, and P.C. Babbitt Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis Curr. Opin. Chem. Biol. 2 1998 607 612
-
(1998)
Curr. Opin. Chem. Biol.
, vol.2
, pp. 607-612
-
-
Gerlt, J.A.1
Babbitt, P.C.2
-
19
-
-
0036510408
-
Conjugative plasmid protein TrwB, an integral membrane type IV secretion system coupling protein. Detailed structural features and mapping of the active site cleft
-
F.X. Gomis-Ruth Conjugative plasmid protein TrwB, an integral membrane type IV secretion system coupling protein. Detailed structural features and mapping of the active site cleft J. Biol. Chem. 277 2002 7556 7566
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 7556-7566
-
-
Gomis-Ruth, F.X.1
-
20
-
-
0035252083
-
The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase
-
F.X. Gomis-Ruth The bacterial conjugation protein TrwB resembles ring helicases and F1-ATPase Nature 409 2001 637 641
-
(2001)
Nature
, vol.409
, pp. 637-641
-
-
Gomis-Ruth, F.X.1
-
21
-
-
41149112563
-
Context-specific amino acid substitution matrices and their use in the detection of protein homologs
-
N.C. Goonesekere, and B. Lee Context-specific amino acid substitution matrices and their use in the detection of protein homologs Proteins 71 2008 910 919
-
(2008)
Proteins
, vol.71
, pp. 910-919
-
-
Goonesekere, N.C.1
Lee, B.2
-
22
-
-
33747201719
-
Structural dissection of the reaction mechanism of cellobiose phosphorylase
-
M. Hidaka Structural dissection of the reaction mechanism of cellobiose phosphorylase Biochem. J. 398 2006 37 43
-
(2006)
Biochem. J.
, vol.398
, pp. 37-43
-
-
Hidaka, M.1
-
23
-
-
72949106699
-
Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: Synthesis of novel metabolites and peptide modifications of proteins
-
L.M. Iyer Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: synthesis of novel metabolites and peptide modifications of proteins Mol. Biosyst. 5 2009 1636 1660
-
(2009)
Mol. Biosyst.
, vol.5
, pp. 1636-1660
-
-
Iyer, L.M.1
-
24
-
-
5144223072
-
Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: Implications for the origins of chromosome segregation, cell division and viral capsid packaging
-
L.M. Iyer Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging Nucleic Acids Res. 32 2004 5260 5279
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 5260-5279
-
-
Iyer, L.M.1
-
25
-
-
0033833116
-
Protein structure alignment using environmental profiles
-
J. Jung, and B. Lee Protein structure alignment using environmental profiles Protein Eng. 13 2000 535 543
-
(2000)
Protein Eng.
, vol.13
, pp. 535-543
-
-
Jung, J.1
Lee, B.2
-
26
-
-
35448992938
-
Accuracy of structure-based sequence alignment of automatic methods
-
C. Kim, and B. Lee Accuracy of structure-based sequence alignment of automatic methods BMC Bioinform. 8 2007 355
-
(2007)
BMC Bioinform.
, vol.8
, pp. 355
-
-
Kim, C.1
Lee, B.2
-
27
-
-
2042437650
-
Initial sequencing and analysis of the human genome
-
E.S. Lander Initial sequencing and analysis of the human genome Nature 409 2001 860 921
-
(2001)
Nature
, vol.409
, pp. 860-921
-
-
Lander, E.S.1
-
28
-
-
36448988254
-
Predicting protein function from sequence and structure
-
D. Lee, O. Redfern, and C. Orengo Predicting protein function from sequence and structure Nat. Rev. Mol. Cell Biol. 8 2007 995 1005
-
(2007)
Nat. Rev. Mol. Cell Biol.
, vol.8
, pp. 995-1005
-
-
Lee, D.1
Redfern, O.2
Orengo, C.3
-
29
-
-
67049132601
-
A structure-based approach for detection of thiol oxidoreductases and their catalytic redox-active cysteine residues
-
S.M. Marino, and V.N. Gladyshev A structure-based approach for detection of thiol oxidoreductases and their catalytic redox-active cysteine residues PLoS Comput. Biol. 5 2009 e1000383
-
(2009)
PLoS Comput. Biol.
, vol.5
, pp. 1000383
-
-
Marino, S.M.1
Gladyshev, V.N.2
-
30
-
-
0028961335
-
SCOP: A structural classification of proteins database for the investigation of sequences and structures
-
A.G. Murzin SCOP: a structural classification of proteins database for the investigation of sequences and structures J. Mol. Biol. 247 1995 536 540
-
(1995)
J. Mol. Biol.
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
-
31
-
-
0012095492
-
The crystal structure of pyroglutamyl peptidase i from Bacillus amyloliquefaciens reveals a new structure for a cysteine protease
-
Y. Odagaki The crystal structure of pyroglutamyl peptidase I from Bacillus amyloliquefaciens reveals a new structure for a cysteine protease Structure 7 1999 399 411
-
(1999)
Structure
, vol.7
, pp. 399-411
-
-
Odagaki, Y.1
-
32
-
-
0030777303
-
CATH - A hierarchic classification of protein domain structures
-
C.A. Orengo CATH - a hierarchic classification of protein domain structures Structure 5 1997 1093 1108
-
(1997)
Structure
, vol.5
, pp. 1093-1108
-
-
Orengo, C.A.1
-
33
-
-
33845691877
-
Dual binding sites for translocation catalysis by Escherichia coli glutathionylspermidine synthetase
-
C.H. Pai Dual binding sites for translocation catalysis by Escherichia coli glutathionylspermidine synthetase EMBO J. 25 2006 5970 5982
-
(2006)
EMBO J.
, vol.25
, pp. 5970-5982
-
-
Pai, C.H.1
-
34
-
-
33744933711
-
The structure of the exocyst subunit Sec6p defines a conserved architecture with diverse roles
-
M.V. Sivaram The structure of the exocyst subunit Sec6p defines a conserved architecture with diverse roles Nat. Struct. Mol. Biol. 13 2006 555 556
-
(2006)
Nat. Struct. Mol. Biol.
, vol.13
, pp. 555-556
-
-
Sivaram, M.V.1
-
35
-
-
23144452044
-
The HHpred interactive server for protein homology detection and structure prediction
-
J. Soding, A. Biegert, and A.N. Lupas The HHpred interactive server for protein homology detection and structure prediction Nucleic Acids Res. 33 2005 W244 W248
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Soding, J.1
Biegert, A.2
Lupas, A.N.3
-
36
-
-
64049100409
-
Sec6p anchors the assembled exocyst complex at sites of secretion
-
J.A. Songer, and M. Munson Sec6p anchors the assembled exocyst complex at sites of secretion Mol. Biol. Cell 20 2009 973 982
-
(2009)
Mol. Biol. Cell
, vol.20
, pp. 973-982
-
-
Songer, J.A.1
Munson, M.2
-
37
-
-
34548489399
-
The ATPase activity of the DNA transporter TrwB is modulated by protein TrwA: Implications for a common assembly mechanism of DNA translocating motors
-
I. Tato The ATPase activity of the DNA transporter TrwB is modulated by protein TrwA: implications for a common assembly mechanism of DNA translocating motors J. Biol. Chem. 282 2007 25569 25576
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 25569-25576
-
-
Tato, I.1
-
38
-
-
20444431234
-
TrwB, the coupling protein involved in DNA transport during bacterial conjugation, is a DNA-dependent ATPase
-
I. Tato TrwB, the coupling protein involved in DNA transport during bacterial conjugation, is a DNA-dependent ATPase Proc. Natl. Acad. Sci. U.S.A. 102 2005 8156 8161
-
(2005)
Proc. Natl. Acad. Sci. U.S.A.
, vol.102
, pp. 8156-8161
-
-
Tato, I.1
-
39
-
-
0030660581
-
A genomic perspective on protein families
-
R.L. Tatusov, E.V. Koonin, and D.J. Lipman A genomic perspective on protein families Science 278 1997 631 637
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.V.2
Lipman, D.J.3
-
41
-
-
0036776124
-
Sequence and structural differences between enzyme and nonenzyme homologs
-
A.E. Todd, C.A. Orengo, and J.M. Thornton Sequence and structural differences between enzyme and nonenzyme homologs Structure 10 2002 1435 1451
-
(2002)
Structure
, vol.10
, pp. 1435-1451
-
-
Todd, A.E.1
Orengo, C.A.2
Thornton, J.M.3
-
42
-
-
0035895505
-
The sequence of the human genome
-
J.C. Venter The sequence of the human genome Science 291 2001 1304 1351
-
(2001)
Science
, vol.291
, pp. 1304-1351
-
-
Venter, J.C.1
-
44
-
-
0033081846
-
A modified definition of Sov, a segment-based measure for protein secondary structure prediction assessment
-
A. Zemla A modified definition of Sov, a segment-based measure for protein secondary structure prediction assessment Proteins 34 1999 220 223
-
(1999)
Proteins
, vol.34
, pp. 220-223
-
-
Zemla, A.1
-
45
-
-
39449115394
-
I-TASSER server for protein 3D structure prediction
-
Y. Zhang I-TASSER server for protein 3D structure prediction BMC Bioinform. 9 2008 40
-
(2008)
BMC Bioinform.
, vol.9
, pp. 40
-
-
Zhang, Y.1
|