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2OLB
Asym. Unit
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Asym.Unit (103 KB)
Biol.Unit 1 (97 KB)
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(1)
Title
:
OLIGOPEPTIDE BINDING PROTEIN (OPPA) COMPLEXED WITH TRI-LYSINE
Authors
:
J. Tame, A. J. Wilkinson
Date
:
10 Sep 95 (Deposition) - 29 Jan 96 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Periplasmic, Complex (Binding Protein/Peptide) Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. R. Tame, E. J. Dodson, G. Murshudov, C. F. Higgins, A. J. Wilkinson
The Crystal Structures Of The Oligopeptide-Binding Protein Oppa Complexed With Tripeptide And Tetrapeptide Ligands.
Structure V. 3 1395 1995
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
2a: URANYL (VI) ION (IUMa)
2b: URANYL (VI) ION (IUMb)
2c: URANYL (VI) ION (IUMc)
2d: URANYL (VI) ION (IUMd)
2e: URANYL (VI) ION (IUMe)
2f: URANYL (VI) ION (IUMf)
2g: URANYL (VI) ION (IUMg)
2h: URANYL (VI) ION (IUMh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
6
Ligand/Ion
ACETATE ION
2
IUM
8
Ligand/Ion
URANYL (VI) ION
[
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]
Sites
(14, 14)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:323 , GLU A:393 , ASN A:394 , ACT A:529 , HOH A:586 , HOH A:627 , HOH A:752
BINDING SITE FOR RESIDUE IUM A 518
02
AC2
SOFTWARE
LYS A:372 , IUM A:520 , ACT A:530 , HOH A:578 , HOH A:591 , HOH A:618 , HOH A:623 , HOH A:628 , HOH A:643 , HOH A:776 , HOH A:814
BINDING SITE FOR RESIDUE IUM A 519
03
AC3
SOFTWARE
PRO A:153 , LYS A:372 , ASP A:459 , IUM A:519 , ACT A:528 , HOH A:623 , HOH A:628 , HOH A:637
BINDING SITE FOR RESIDUE IUM A 520
04
AC4
SOFTWARE
VAL A:230 , GLU A:251 , ASP A:369 , LYS A:373 , HOH A:613 , HOH A:694 , HOH A:713
BINDING SITE FOR RESIDUE IUM A 521
05
AC5
SOFTWARE
GLU A:53 , LYS A:281 , PHE A:361 , ASP A:362 , ASP A:410 , LYS A:501 , HOH A:688 , HOH A:849 , HOH A:964
BINDING SITE FOR RESIDUE IUM A 522
06
AC6
SOFTWARE
ASP A:133 , HIS A:517 , HOH A:673 , HOH A:782 , HOH A:813
BINDING SITE FOR RESIDUE IUM A 523
07
AC7
SOFTWARE
HOH A:718 , HOH A:782
BINDING SITE FOR RESIDUE IUM A 524
08
AC8
SOFTWARE
ASP A:11 , GLU A:342 , ACT A:531 , HOH A:855 , HOH A:1077
BINDING SITE FOR RESIDUE IUM A 525
09
AC9
SOFTWARE
TYR A:245 , ASN A:247 , ASN A:366 , HIS A:371 , LYS B:3
BINDING SITE FOR RESIDUE ACT A 526
10
BC1
SOFTWARE
ASN A:247 , TYR A:273 , LYS A:307 , ASP A:311 , LEU A:370 , TYR A:483 , TYR A:485 , VAL A:486 , HOH A:556 , HOH A:693 , HOH A:1078
BINDING SITE FOR RESIDUE ACT A 527
11
BC2
SOFTWARE
ALA A:457 , ARG A:462 , IUM A:520 , HOH A:637 , HOH A:691 , HOH A:701 , HOH A:768
BINDING SITE FOR RESIDUE ACT A 528
12
BC3
SOFTWARE
LYS A:157 , ASP A:323 , IUM A:518 , HOH A:627 , HOH A:642 , HOH A:668 , HOH A:728
BINDING SITE FOR RESIDUE ACT A 529
13
BC4
SOFTWARE
TYR A:154 , TYR A:156 , IUM A:519 , HOH A:590 , HOH A:707 , HOH A:776 , HOH A:785 , HOH A:814
BINDING SITE FOR RESIDUE ACT A 530
14
BC5
SOFTWARE
ASP A:11 , ALA A:349 , IUM A:525 , HOH A:845
BINDING SITE FOR RESIDUE ACT A 531
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: SBP_BACTERIAL_5 (A:61-82)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SBP_BACTERIAL_5
PS01040
Bacterial extracellular solute-binding proteins, family 5 signature.
OPPA_SALTY
87-108
1
A:61-82
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2olba_ (A:)
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(
)
(
)
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(
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(
)
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)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
:
Oligo-peptide binding protein (OPPA)
(34)
Salmonella typhimurium [TaxId: 90371]
(32)
1a
d2olba_
A:
[
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]
CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_2olbA01 (A:1-44,A:169-270,A:487-517)
2a: CATH_2olbA02 (A:45-168)
3a: CATH_2olbA03 (A:271-486)
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)
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)
Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
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)
Salmonella typhimurium. Organism_taxid: 602.
(24)
1a
2olbA01
A:1-44,A:169-270,A:487-517
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Dipeptide-binding Protein; domain 1
(35)
Homologous Superfamily
:
Dipeptide-binding Protein; Domain 1
(35)
Salmonella typhimurium. Organism_taxid: 602.
(24)
2a
2olbA02
A:45-168
Architecture
:
Roll
(3276)
Topology
:
Dipeptide-binding Protein; domain 3
(35)
Homologous Superfamily
:
Dipeptide-binding Protein; Domain 3
(35)
Salmonella typhimurium. Organism_taxid: 602.
(24)
3a
2olbA03
A:271-486
[
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]
Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_SBP_bac_5_2olbA01 (A:55-438)
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Clans
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Families
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)
(
)
Organisms
(
)
(
)
Clan
:
PBP
(391)
Family
:
SBP_bac_5
(33)
Salmonella typhimurium
(9)
1a
SBP_bac_5-2olbA01
A:55-438
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Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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