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1POY
Biol. Unit 2
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Asym.Unit (214 KB)
Biol.Unit 1 (107 KB)
Biol.Unit 2 (107 KB)
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(1)
Title
:
SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (DIMER FORM)
Authors
:
S. Sugiyama, D. G. Vassylyev, M. Matsushima, K. Morikawa
Date
:
02 Feb 96 (Deposition) - 11 Jul 96 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : 1,2,3,4
Biol. Unit 1: 1,2 (1x)
Biol. Unit 2: 3,4 (1x)
Keywords
:
Transport Protein, Binding Protein
(Keyword Search:
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Reference
:
S. Sugiyama, D. G. Vassylyev, M. Matsushima, K. Kashiwagi, K. Igarashi, K. Morikawa
Crystal Structure Of Potd, The Primary Receptor Of The Polyamine Transport System In Escherichia Coli.
J. Biol. Chem. V. 271 9519 1996
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: SPERMIDINE (SPDa)
1b: SPERMIDINE (SPDb)
1c: SPERMIDINE (SPDc)
1d: SPERMIDINE (SPDd)
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No.
Name
Count
Type
Full Name
1
SPD
2
Ligand/Ion
SPERMIDINE
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Sites
(2, 2)
Info
All Sites
1: AC3 (SOFTWARE)
2: AC4 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC3
SOFTWARE
TRP 3:34 , GLU 3:36 , TYR 3:37 , SER 3:83 , TYR 3:85 , ASP 3:168 , GLU 3:171 , TRP 3:229 , TRP 3:255 , ASP 3:257 , GLN 3:327
BINDING SITE FOR RESIDUE SPD 3 400
2
AC4
SOFTWARE
TRP 4:34 , THR 4:35 , GLU 4:36 , TYR 4:37 , SER 4:83 , TYR 4:85 , ASP 4:168 , GLU 4:171 , TRP 4:229 , TRP 4:255 , ASP 4:257 , TYR 4:293 , GLN 4:327
BINDING SITE FOR RESIDUE SPD 4 400
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
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Exons
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Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1poy1_ (1:)
1b: SCOP_d1poy2_ (2:)
1c: SCOP_d1poy3_ (3:)
1d: SCOP_d1poy4_ (4:)
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Protein Domains
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Periplasmic binding protein-like II
(813)
Superfamily
:
Periplasmic binding protein-like II
(813)
Family
:
Phosphate binding protein-like
(463)
Protein domain
:
Spermidine/putrescine-binding protein PotD
(2)
Escherichia coli [TaxId: 562]
(2)
1a
d1poy1_
1:
1b
d1poy2_
2:
1c
d1poy3_
3:
1d
d1poy4_
4:
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CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1poy102 (1:132-255,1:316-348)
1b: CATH_1poy101 (1:26-131,1:256-315)
1c: CATH_1poy201 (2:26-131,2:256-315)
1d: CATH_1poy301 (3:26-131,3:256-315)
1e: CATH_1poy401 (4:26-131,4:256-315)
1f: CATH_1poy202 (2:132-255,2:316-348)
1g: CATH_1poy302 (3:132-255,3:316-348)
1h: CATH_1poy402 (4:132-255,4:316-348)
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Organisms
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(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
D-Maltodextrin-Binding Protein; domain 2
(600)
Homologous Superfamily
:
Periplasmic binding protein-like II
(486)
Escherichia coli. Organism_taxid: 562.
(22)
1a
1poy102
1:132-255,1:316-348
1b
1poy101
1:26-131,1:256-315
1c
1poy201
2:26-131,2:256-315
1d
1poy301
3:26-131,3:256-315
1e
1poy401
4:26-131,4:256-315
1f
1poy202
2:132-255,2:316-348
1g
1poy302
3:132-255,3:316-348
1h
1poy402
4:132-255,4:316-348
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_SBP_bac_8_1poy401 (4:41-317)
1b: PFAM_SBP_bac_8_1poy402 (4:41-317)
1c: PFAM_SBP_bac_8_1poy403 (4:41-317)
1d: PFAM_SBP_bac_8_1poy404 (4:41-317)
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Clan
:
PBP
(391)
Family
:
SBP_bac_8
(15)
Escherichia coli (strain K12)
(2)
1a
SBP_bac_8-1poy401
4:41-317
1b
SBP_bac_8-1poy402
4:41-317
1c
SBP_bac_8-1poy403
4:41-317
1d
SBP_bac_8-1poy404
4:41-317
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Asym.Unit (214 KB)
Header - Asym.Unit
Biol.Unit 1 (107 KB)
Header - Biol.Unit 1
Biol.Unit 2 (107 KB)
Header - Biol.Unit 2
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