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1OMI
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Asym.Unit (81 KB)
Biol.Unit 1 (40 KB)
Biol.Unit 2 (40 KB)
Biol.Unit 3 (77 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PRFA,THE TRANSCRIPTIONAL REGULATOR IN LISTERIA MONOCYTOGENES
Authors
:
R. Thirumuruhan, K. Rajashankar, A. A. Fedorov, T. Dodatko, M. R. Chanc P. Cossart, S. C. Almo, S. K. Burley, New York Sgx Research Center Structural Genomics (Nysgxrc)
Date
:
25 Feb 03 (Deposition) - 11 Mar 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Transcriptional Regulator Prfa, Cap Fold, Listeria Monocytogenes, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Transcription
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. Thirumuruhan, K. Rajashankar, A. A. Fedorov, T. Dodatko, M. R. Chance, P. Cossart, S. C. Almo
Crystal Structure Of Prfa, The Transcriptional Regulator In Listeria Monocytogenes
To Be Published
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
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No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:1029 , ASN A:1030 , ASP A:1033 , GLN A:1035 , GLU A:1036 , SER A:1071 , SER A:1079 , GLY A:1081 , TYR A:1082 , TYR A:1083
BINDING SITE FOR RESIDUE GOL A 3001
2
AC2
SOFTWARE
ASN B:2030 , ASP B:2033 , GLN B:2035 , GLU B:2036 , SER B:2071 , SER B:2079 , GLY B:2081 , TYR B:2082 , TYR B:2083 , ARG B:2188
BINDING SITE FOR RESIDUE GOL B 3002
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SAPs(SNPs)/Variants
(1, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_PRFA_LISMO_001 (G2145S, chain A/B, )
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dbSNP
PDB
No.
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Variant
UniProt ID
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ID
Chain
Variant
1
UniProt
VAR_PRFA_LISMO_001
*
G
145
S
PRFA_LISMO
---
---
A
B
G
1145
2145
S
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: HTH_CRP_2 (A:1137-1212,B:2137-2212)
2: HTH_CRP_1 (A:1169-1193,B:2169-2193)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HTH_CRP_2
PS51063
Crp-type HTH domain profile.
PRFA_LISMO
137-212
2
A:1137-1212
B:2137-2212
2
HTH_CRP_1
PS00042
Crp-type HTH domain signature.
PRFA_LISMO
169-193
2
A:1169-1193
B:2169-2193
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Exons
(0, 0)
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d1omia2 (A:1138-1237)
1b: SCOP_d1omib2 (B:2138-2237)
2a: SCOP_d1omia1 (A:1005-1137)
2b: SCOP_d1omib1 (B:2005-2137)
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Protein Domains
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Class
:
All alpha proteins
(14657)
Fold
:
DNA/RNA-binding 3-helical bundle
(1299)
Superfamily
:
Winged helix DNA-binding domain
(576)
Family
:
CAP C-terminal domain-like
(39)
Protein domain
:
Listeriolysin regulatory protein PrfA, C-terminal domain
(1)
Listeria monocytogenes [TaxId: 1639]
(1)
1a
d1omia2
A:1138-1237
1b
d1omib2
B:2138-2237
Class
:
All beta proteins
(24004)
Fold
:
Double-stranded beta-helix
(580)
Superfamily
:
cAMP-binding domain-like
(99)
Family
:
Listeriolysin regulatory protein PrfA, N-terminal domain
(3)
Protein domain
:
Listeriolysin regulatory protein PrfA, N-terminal domain
(1)
Listeria monocytogenes [TaxId: 1639]
(1)
2a
d1omia1
A:1005-1137
2b
d1omib1
B:2005-2137
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CATH Domains
(3, 5)
Info
all CATH domains
1a: CATH_1omiA03 (A:1137-1237)
1b: CATH_1omiB02 (B:2137-2237)
2a: CATH_1omiA02 (A:1110-1136)
3a: CATH_1omiA01 (A:1005-1109)
3b: CATH_1omiB01 (B:2005-2109)
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Organisms
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Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Arc Repressor Mutant, subunit A
(1030)
Homologous Superfamily
:
'winged helix' repressor DNA binding domain
(507)
Listeria monocytogenes. Organism_taxid: 1639.
(1)
1a
1omiA03
A:1137-1237
1b
1omiB02
B:2137-2237
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
Single helix bin
(7)
Listeria monocytogenes. Organism_taxid: 1639.
(1)
2a
1omiA02
A:1110-1136
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Jelly Rolls
(177)
Listeria monocytogenes. Organism_taxid: 1639.
(1)
3a
1omiA01
A:1005-1109
3b
1omiB01
B:2005-2109
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_HTH_Crp_2_1omiB01 (B:2141-2217)
1b: PFAM_HTH_Crp_2_1omiB02 (B:2141-2217)
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HTH
(544)
Family
:
HTH_Crp_2
(9)
Listeria monocytogenes
(1)
1a
HTH_Crp_2-1omiB01
B:2141-2217
1b
HTH_Crp_2-1omiB02
B:2141-2217
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Asym.Unit (81 KB)
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Biol.Unit 3 (77 KB)
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