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3V8X
Asym. Unit
Info
Asym.Unit (528 KB)
Biol.Unit 1 (517 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF TRANSFERRIN BINDING PROTEIN A (TBPA) FROM NEISSERIAL MENINGITIDIS SEROGROUP B IN COMPLEX WITH FULL LENGTH HUMAN TRANSFERRIN
Authors
:
N. Noinaj, N. Easley, S. K. Buchanan
Date
:
23 Dec 11 (Deposition) - 29 Feb 12 (Release) - 18 Apr 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Iron Binding Protein, Transferrin Binding Protein A, Iron Binding/Scavenging, Membrane Protein-Metal Transport Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Noinaj, N. C. Easley, M. Oke, N. Mizuno, J. Gumbart, E. Boura, A. N. Steere, O. Zak, P. Aisen, E. Tajkhorshid, R. W. Evans, A. R. Gorringe, A. B. Mason, A. C. Steven, S. K. Buchanan
Structural Basis For Iron Piracy By Pathogenic Neisseria.
Nature V. 483 53 2012
[
close entry info
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Hetero Components
(6, 21)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTA... (C8Ea)
2b: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTA... (C8Eb)
3a: BETA-D-GALACTOSE (GALa)
3b: BETA-D-GALACTOSE (GALb)
3c: BETA-D-GALACTOSE (GALc)
4a: ALPHA-D-MANNOSE (MANa)
4b: ALPHA-D-MANNOSE (MANb)
4c: ALPHA-D-MANNOSE (MANc)
4d: ALPHA-D-MANNOSE (MANd)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
5d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5e: N-ACETYL-D-GLUCOSAMINE (NAGe)
5f: N-ACETYL-D-GLUCOSAMINE (NAGf)
5g: N-ACETYL-D-GLUCOSAMINE (NAGg)
5h: N-ACETYL-D-GLUCOSAMINE (NAGh)
6a: O-SIALIC ACID (SIAa)
6b: O-SIALIC ACID (SIAb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
C8E
2
Ligand/Ion
(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE
3
GAL
3
Ligand/Ion
BETA-D-GALACTOSE
4
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
5
NAG
8
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
SIA
2
Ligand/Ion
O-SIALIC ACID
[
close Hetero Component info
]
Sites
(21, 21)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:406 , ARG A:432 , GLY A:434 , GLY A:474 , GLU A:475 , SER A:476 , ARG A:478 , GLY A:507
BINDING SITE FOR RESIDUE C8E A 1001
02
AC2
SOFTWARE
LYS A:836 , ALA A:839 , ARG A:840 , ARG A:841 , ARG A:843 , ARG A:873 , HOH A:1159 , HOH A:1186
BINDING SITE FOR RESIDUE C8E A 1002
03
AC3
SOFTWARE
ALA A:361 , ASN A:382 , ASN B:413 , NAG B:702
BINDING SITE FOR RESIDUE NAG B 701
04
AC4
SOFTWARE
GLY B:425 , ALA B:575 , ARG B:581 , NAG B:701 , BMA B:703 , MAN B:708
BINDING SITE FOR RESIDUE NAG B 702
05
AC5
SOFTWARE
ALA B:575 , NAG B:702 , MAN B:704 , MAN B:708
BINDING SITE FOR RESIDUE BMA B 703
06
AC6
SOFTWARE
ARG A:522 , TYR A:524 , BMA B:703 , NAG B:705 , HOH B:813
BINDING SITE FOR RESIDUE MAN B 704
07
AC7
SOFTWARE
ASN A:555 , MAN B:704 , GAL B:706 , SIA B:707
BINDING SITE FOR RESIDUE NAG B 705
08
AC8
SOFTWARE
NAG B:705 , SIA B:707
BINDING SITE FOR RESIDUE GAL B 706
09
AC9
SOFTWARE
ASN A:555 , NAG B:705 , GAL B:706
BINDING SITE FOR RESIDUE SIA B 707
10
BC1
SOFTWARE
ALA B:575 , ARG B:581 , NAG B:702 , BMA B:703 , NAG B:709
BINDING SITE FOR RESIDUE MAN B 708
11
BC2
SOFTWARE
MAN B:708 , GAL B:710
BINDING SITE FOR RESIDUE NAG B 709
12
BC3
SOFTWARE
NAG B:709
BINDING SITE FOR RESIDUE GAL B 710
13
BC4
SOFTWARE
GLY A:130 , ASN B:611 , ARG B:623 , NAG B:712
BINDING SITE FOR RESIDUE NAG B 711
14
BC5
SOFTWARE
NAG B:711 , BMA B:713
BINDING SITE FOR RESIDUE NAG B 712
15
BC6
SOFTWARE
NAG B:712 , MAN B:714 , MAN B:718
BINDING SITE FOR RESIDUE BMA B 713
16
BC7
SOFTWARE
ASN A:298 , BMA B:713 , NAG B:715
BINDING SITE FOR RESIDUE MAN B 714
17
BC8
SOFTWARE
MAN B:714 , GAL B:716
BINDING SITE FOR RESIDUE NAG B 715
18
BC9
SOFTWARE
ARG A:286 , NAG B:715 , SIA B:717
BINDING SITE FOR RESIDUE GAL B 716
19
CC1
SOFTWARE
VAL A:240 , GLN A:241 , SER A:242 , ASN A:298 , PHE A:300 , GAL B:716
BINDING SITE FOR RESIDUE SIA B 717
20
CC2
SOFTWARE
BMA B:713 , NAG B:719
BINDING SITE FOR RESIDUE MAN B 718
21
CC3
SOFTWARE
LYS B:627 , MAN B:718 , HOH B:839
BINDING SITE FOR RESIDUE NAG B 719
[
close Site info
]
SAPs(SNPs)/Variants
(16, 16)
Info
(mutated residues are not available)
All SNPs/Variants
01: VAR_034569 (R23L, chain B, )
02: VAR_029280 (S36R, chain B, )
03: VAR_034570 (A57V, chain B, )
04: VAR_038810 (D58N, chain B, )
05: VAR_011997 (G123S, chain B, )
06: VAR_011998 (G258S, chain B, )
07: VAR_007544 (D277G, chain B, )
08: VAR_007545 (H300R, chain B, )
09: VAR_011999 (W358C, chain B, )
10: VAR_058199 (V429V, chain B, )
11: VAR_012997 (A458P, chain B, )
12: VAR_034571 (G543V, chain B, )
13: VAR_012000 (P570S, chain B, )
14: VAR_012001 (T626P, chain B, )
15: VAR_012998 (K627E, chain B, )
16: VAR_012999 (G652E, chain B, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
01
UniProt
VAR_034569
R
42
L
TRFE_HUMAN
Polymorphism
41298293
B
R
23
L
02
UniProt
VAR_029280
S
55
R
TRFE_HUMAN
Polymorphism
8177318
B
S
36
R
03
UniProt
VAR_034570
A
76
V
TRFE_HUMAN
Polymorphism
41298977
B
A
57
V
04
UniProt
VAR_038810
D
77
N
TRFE_HUMAN
Disease (ATRAF)
---
B
D
58
N
05
UniProt
VAR_011997
G
142
S
TRFE_HUMAN
Polymorphism
1799830
B
G
123
S
06
UniProt
VAR_011998
G
277
S
TRFE_HUMAN
Polymorphism
1799899
B
G
258
S
07
UniProt
VAR_007544
D
296
G
TRFE_HUMAN
Polymorphism
8177238
B
D
277
G
08
UniProt
VAR_007545
H
319
R
TRFE_HUMAN
Polymorphism
41295774
B
H
300
R
09
UniProt
VAR_011999
W
377
C
TRFE_HUMAN
Polymorphism
1804498
B
W
358
C
10
UniProt
VAR_058199
I
448
V
TRFE_HUMAN
Polymorphism
2692696
B
V
429
V
11
UniProt
VAR_012997
A
477
P
TRFE_HUMAN
Disease (ATRAF)
---
B
A
458
P
12
UniProt
VAR_034571
G
562
V
TRFE_HUMAN
Polymorphism
41296590
B
G
543
V
13
UniProt
VAR_012000
P
589
S
TRFE_HUMAN
Polymorphism
1049296
B
P
570
S
14
UniProt
VAR_012001
T
645
P
TRFE_HUMAN
Polymorphism
1130537
B
T
626
P
15
UniProt
VAR_012998
K
646
E
TRFE_HUMAN
Polymorphism
---
B
K
627
E
16
UniProt
VAR_012999
G
671
E
TRFE_HUMAN
Polymorphism
121918677
B
G
652
E
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(5, 8)
Info
All PROSITE Patterns/Profiles
1: TRANSFERRIN_LIKE_4 (B:6-328|B:342-664)
2: TRANSFERRIN_LIKE_1 (B:95-104)
3: TRANSFERRIN_LIKE_2 (B:188-204|B:517-532)
4: TRANSFERRIN_LIKE_3 (B:222-252|B:558-588)
5: TONB_DEPENDENT_REC_2 (A:898-915)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TRANSFERRIN_LIKE_4
PS51408
Transferrin-like domain profile.
TRFE_HUMAN
25-347
361-683
2
B:6-328
B:342-664
2
TRANSFERRIN_LIKE_1
PS00205
Transferrin-like domain signature 1.
TRFE_HUMAN
114-123
1
B:95-104
3
TRANSFERRIN_LIKE_2
PS00206
Transferrin-like domain signature 2.
TRFE_HUMAN
207-223
536-551
2
B:188-204
B:517-532
4
TRANSFERRIN_LIKE_3
PS00207
Transferrin-like domain signature 3.
TRFE_HUMAN
241-271
577-607
2
B:222-252
B:558-588
5
TONB_DEPENDENT_REC_2
PS01156
TonB-dependent receptor proteins signature 2.
TBP1_NEIMB
898-915
1
A:898-915
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
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