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1BKA
Biol. Unit 1
Info
Asym.Unit (118 KB)
Biol.Unit 1 (112 KB)
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(1)
Title
:
OXALATE-SUBSTITUTED DIFERRIC LACTOFERRIN
Authors
:
H. M. Baker, C. A. Smith, E. N. Baker
Date
:
15 Apr 96 (Deposition) - 08 Nov 96 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Anion Binding, Iron Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. M. Baker, B. F. Anderson, A. M. Brodie, M. S. Shongwe, C. A. Smith, E. N. Baker
Anion Binding By Transferrins: Importance Of Second-Shell Effects Revealed By The Crystal Structure Of Oxalate-Substituted Diferric Lactoferrin.
Biochemistry V. 35 9007 1996
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1b: FE (III) ION (FEb)
2a: OXALATE ION (OXLa)
2b: OXALATE ION (OXLb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE
-1
Ligand/Ion
FE (III) ION
2
OXL
2
Ligand/Ion
OXALATE ION
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AN1 (UNKNOWN)
6: AN2 (UNKNOWN)
7: FE1 (UNKNOWN)
8: FE2 (UNKNOWN)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:60 , TYR A:92 , TYR A:192 , HIS A:253 , OXL A:695
BINDING SITE FOR RESIDUE FE A 693
2
AC2
SOFTWARE
ASP A:395 , TYR A:435 , TYR A:528 , HIS A:597 , OXL A:696
BINDING SITE FOR RESIDUE FE A 694
3
AC3
SOFTWARE
ASP A:60 , TYR A:92 , THR A:117 , ARG A:121 , THR A:122 , ALA A:123 , GLY A:124 , TYR A:192 , HIS A:253 , FE A:693
BINDING SITE FOR RESIDUE OXL A 695
4
AC4
SOFTWARE
ASP A:395 , TYR A:435 , THR A:461 , ARG A:465 , ALA A:467 , GLY A:468 , TYR A:528 , HIS A:597 , FE A:694
BINDING SITE FOR RESIDUE OXL A 696
5
AN1
UNKNOWN
OXL A:695 , THR A:117 , ARG A:121 , ALA A:123 , GLY A:124 , FE A:693
OXALATE BINDING SITE.
6
AN2
UNKNOWN
OXL A:696 , THR A:461 , ARG A:465 , ALA A:467 , GLY A:468 , FE A:694
OXALATE BINDING SITE.
7
FE1
UNKNOWN
FE A:693 , ASP A:60 , TYR A:92 , TYR A:192 , HIS A:253 , OXL A:695
IRON BINDING SITE.
8
FE2
UNKNOWN
FE A:694 , ASP A:395 , TYR A:435 , TYR A:528 , HIS A:597 , OXL A:696
IRON BINDING SITE.
[
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SAPs(SNPs)/Variants
(5, 5)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_013504 (A10T, chain A, )
2: VAR_013505 (K28R, chain A, )
3: VAR_013506 (I129T, chain A, )
4: VAR_013507 (G403C, chain A, )
5: VAR_013508 (E560D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_013504
A
29
T
TRFL_HUMAN
Polymorphism
1126477
A
A
10
T
2
UniProt
VAR_013505
K
47
R
TRFL_HUMAN
Polymorphism
1126478
A
K
28
R
3
UniProt
VAR_013506
I
148
T
TRFL_HUMAN
Polymorphism
1126479
A
I
129
T
4
UniProt
VAR_013507
G
422
C
TRFL_HUMAN
Polymorphism
1042055
A
G
403
C
5
UniProt
VAR_013508
E
579
D
TRFL_HUMAN
Polymorphism
2073495
A
E
560
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(4, 8)
Info
All PROSITE Patterns/Profiles
1: TRANSFERRIN_LIKE_4 (A:345-676)
2: TRANSFERRIN_LIKE_1 (A:435-444)
3: TRANSFERRIN_LIKE_2 (A:528-544)
4: TRANSFERRIN_LIKE_3 (A:570-600)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSFERRIN_LIKE_4
PS51408
Transferrin-like domain profile.
TRFL_HUMAN
25-352
364-695
2
A:6-333
A:345-676
2
TRANSFERRIN_LIKE_1
PS00205
Transferrin-like domain signature 1.
TRFL_HUMAN
111-120
454-463
2
A:92-101
A:435-444
3
TRANSFERRIN_LIKE_2
PS00206
Transferrin-like domain signature 2.
TRFL_HUMAN
211-227
547-563
2
A:192-208
A:528-544
4
TRANSFERRIN_LIKE_3
PS00207
Transferrin-like domain signature 3.
TRFL_HUMAN
245-275
589-619
2
A:226-256
A:570-600
[
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Exons
(0, 0)
Info
All Exons
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Note:
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, 2)
Info
All SCOP Domains
1a: SCOP_d1bkaa1 (A:4-334)
1b: SCOP_d1bkaa2 (A:335-691)
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Protein Domains
(
)
(
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Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Periplasmic binding protein-like II
(813)
Superfamily
:
Periplasmic binding protein-like II
(813)
Family
:
Transferrin
(82)
Protein domain
:
Lactoferrin
(42)
Human (Homo sapiens) [TaxId: 9606]
(22)
1a
d1bkaa1
A:4-334
1b
d1bkaa2
A:335-691
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1bkaA02 (A:92-250)
1b: CATH_1bkaA04 (A:434-594)
1c: CATH_1bkaA01 (A:4-91,A:251-339)
1d: CATH_1bkaA03 (A:340-433,A:595-691)
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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)
Human (Homo sapiens)
(55)
1a
1bkaA02
A:92-250
1b
1bkaA04
A:434-594
1c
1bkaA01
A:4-91,A:251-339
1d
1bkaA03
A:340-433,A:595-691
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain A
Asymmetric Unit 1
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Asym.Unit (118 KB)
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