PMID- 16021622
OWN - NLM
STAT- MEDLINE
DCOM- 20060313
LR  - 20061115
IS  - 1097-0134 (Electronic)
IS  - 0887-3585 (Linking)
VI  - 60
IP  - 4
DP  - 2005 Sep 1
TI  - Structural analysis of a set of proteins resulting from a bacterial genomics
      project.
PG  - 787-96
AB  - The targets of the Structural GenomiX (SGX) bacterial genomics project were
      proteins conserved in multiple prokaryotic organisms with no obvious sequence
      homolog in the Protein Data Bank of known structures. The outcome of this work
      was 80 structures, covering 60 unique sequences and 49 different genes.
      Experimental phase determination from proteins incorporating Se-Met was carried
      out for 45 structures with most of the remainder solved by molecular replacement 
      using members of the experimentally phased set as search models. An automated
      tool was developed to deposit these structures in the Protein Data Bank, along
      with the associated X-ray diffraction data (including refined experimental
      phases) and experimentally confirmed sequences. BLAST comparisons of the SGX
      structures with structures that had appeared in the Protein Data Bank over the
      intervening 3.5 years since the SGX target list had been compiled identified
      homologs for 49 of the 60 unique sequences represented by the SGX structures.
      This result indicates that, for bacterial structures that are relatively easy to 
      express, purify, and crystallize, the structural coverage of gene space is
      proceeding rapidly. More distant sequence-structure relationships between the SGX
      and PDB structures were investigated using PDB-BLAST and Combinatorial Extension 
      (CE). Only one structure, SufD, has a truly unique topology compared to all folds
      in the PDB.
CI  - Copyright 2005 Wiley-Liss, Inc.
FAU - Badger, J
AU  - Badger J
AD  - Structural GenomiX Inc., San Diego, California, USA. jbadger@active-sight.com
FAU - Sauder, J M
AU  - Sauder JM
FAU - Adams, J M
AU  - Adams JM
FAU - Antonysamy, S
AU  - Antonysamy S
FAU - Bain, K
AU  - Bain K
FAU - Bergseid, M G
AU  - Bergseid MG
FAU - Buchanan, S G
AU  - Buchanan SG
FAU - Buchanan, M D
AU  - Buchanan MD
FAU - Batiyenko, Y
AU  - Batiyenko Y
FAU - Christopher, J A
AU  - Christopher JA
FAU - Emtage, S
AU  - Emtage S
FAU - Eroshkina, A
AU  - Eroshkina A
FAU - Feil, I
AU  - Feil I
FAU - Furlong, E B
AU  - Furlong EB
FAU - Gajiwala, K S
AU  - Gajiwala KS
FAU - Gao, X
AU  - Gao X
FAU - He, D
AU  - He D
FAU - Hendle, J
AU  - Hendle J
FAU - Huber, A
AU  - Huber A
FAU - Hoda, K
AU  - Hoda K
FAU - Kearins, P
AU  - Kearins P
FAU - Kissinger, C
AU  - Kissinger C
FAU - Laubert, B
AU  - Laubert B
FAU - Lewis, H A
AU  - Lewis HA
FAU - Lin, J
AU  - Lin J
FAU - Loomis, K
AU  - Loomis K
FAU - Lorimer, D
AU  - Lorimer D
FAU - Louie, G
AU  - Louie G
FAU - Maletic, M
AU  - Maletic M
FAU - Marsh, C D
AU  - Marsh CD
FAU - Miller, I
AU  - Miller I
FAU - Molinari, J
AU  - Molinari J
FAU - Muller-Dieckmann, H J
AU  - Muller-Dieckmann HJ
FAU - Newman, J M
AU  - Newman JM
FAU - Noland, B W
AU  - Noland BW
FAU - Pagarigan, B
AU  - Pagarigan B
FAU - Park, F
AU  - Park F
FAU - Peat, T S
AU  - Peat TS
FAU - Post, K W
AU  - Post KW
FAU - Radojicic, S
AU  - Radojicic S
FAU - Ramos, A
AU  - Ramos A
FAU - Romero, R
AU  - Romero R
FAU - Rutter, M E
AU  - Rutter ME
FAU - Sanderson, W E
AU  - Sanderson WE
FAU - Schwinn, K D
AU  - Schwinn KD
FAU - Tresser, J
AU  - Tresser J
FAU - Winhoven, J
AU  - Winhoven J
FAU - Wright, T A
AU  - Wright TA
FAU - Wu, L
AU  - Wu L
FAU - Xu, J
AU  - Xu J
FAU - Harris, T J R
AU  - Harris TJ
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
PL  - United States
TA  - Proteins
JT  - Proteins
JID - 8700181
RN  - 0 (Enzymes)
RN  - 0 (Escherichia coli Proteins)
SB  - IM
MH  - Databases, Protein
MH  - Enzymes/chemistry/genetics
MH  - Escherichia coli/*genetics
MH  - Escherichia coli Proteins/*chemistry/genetics
MH  - *Genome, Bacterial
MH  - *Genomics
MH  - Models, Molecular
MH  - Protein Conformation
MH  - Regression Analysis
MH  - X-Ray Diffraction
EDAT- 2005/07/16 09:00
MHDA- 2006/03/15 09:00
CRDT- 2005/07/16 09:00
PHST- 2005/07/16 09:00 [pubmed]
PHST- 2006/03/15 09:00 [medline]
PHST- 2005/07/16 09:00 [entrez]
AID - 10.1002/prot.20541 [doi]
PST - ppublish
SO  - Proteins. 2005 Sep 1;60(4):787-96. doi: 10.1002/prot.20541.