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2BGN
Biol. Unit 1
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Asym.Unit (738 KB)
Biol.Unit 1 (366 KB)
Biol.Unit 2 (366 KB)
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(1)
Title
:
HIV-1 TAT PROTEIN DERIVED N-TERMINAL NONAPEPTIDE TRP2-TAT (1-9) BOUND TO THE ACTIVE SITE OF DIPEPTIDYL PEPTIDASE IV (CD26)
Authors
:
W. A. Weihofen, J. Liu, W. Reutter, W. Saenger, H. Fan
Date
:
03 Jan 05 (Deposition) - 27 Jan 05 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.15
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,W,X,Y,Z
Biol. Unit 1: A,B,E,F,W,X (1x)
Biol. Unit 2: C,D,G,H,Y,Z (1x)
Keywords
:
Hydrolase, Hydrolase/Complex, Dipetidyl Peptidase Iv, Dppiv, Cd26, Alpha/Beta-Hydrolase Fold, Beta-Propeller Fold, Protein-Protein Complex, Adenosine Deaminase, Ada, Serine Protease, Aminopeptidase, Hiv-1 Tat Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. A. Weihofen, J. Liu, W. Reutter, W. Saenger, H. Fan
Crystal Structures Of Hiv-1 Tat-Derived Nonapeptides Tat-(1-9) And Trp2-Tat-(1-9) Bound To The Active Site Of Dipeptidyl-Peptidase Iv (Cd26)
J. Biol. Chem. V. 280 14911 2005
[
close entry info
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Hetero Components
(4, 30)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
2a: BETA-L-FUCOSE (FULa)
2b: BETA-L-FUCOSE (FULb)
2c: BETA-L-FUCOSE (FULc)
2d: BETA-L-FUCOSE (FULd)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
4ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
4ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
4ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
4ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
4af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
4ag: N-ACETYL-D-GLUCOSAMINE (NAGag)
4ah: N-ACETYL-D-GLUCOSAMINE (NAGah)
4ai: N-ACETYL-D-GLUCOSAMINE (NAGai)
4aj: N-ACETYL-D-GLUCOSAMINE (NAGaj)
4ak: N-ACETYL-D-GLUCOSAMINE (NAGak)
4al: N-ACETYL-D-GLUCOSAMINE (NAGal)
4am: N-ACETYL-D-GLUCOSAMINE (NAGam)
4an: N-ACETYL-D-GLUCOSAMINE (NAGan)
4ao: N-ACETYL-D-GLUCOSAMINE (NAGao)
4ap: N-ACETYL-D-GLUCOSAMINE (NAGap)
4aq: N-ACETYL-D-GLUCOSAMINE (NAGaq)
4ar: N-ACETYL-D-GLUCOSAMINE (NAGar)
4as: N-ACETYL-D-GLUCOSAMINE (NAGas)
4at: N-ACETYL-D-GLUCOSAMINE (NAGat)
4au: N-ACETYL-D-GLUCOSAMINE (NAGau)
4av: N-ACETYL-D-GLUCOSAMINE (NAGav)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
4r: N-ACETYL-D-GLUCOSAMINE (NAGr)
4s: N-ACETYL-D-GLUCOSAMINE (NAGs)
4t: N-ACETYL-D-GLUCOSAMINE (NAGt)
4u: N-ACETYL-D-GLUCOSAMINE (NAGu)
4v: N-ACETYL-D-GLUCOSAMINE (NAGv)
4w: N-ACETYL-D-GLUCOSAMINE (NAGw)
4x: N-ACETYL-D-GLUCOSAMINE (NAGx)
4y: N-ACETYL-D-GLUCOSAMINE (NAGy)
4z: N-ACETYL-D-GLUCOSAMINE (NAGz)
5a: ZINC ION (ZNa)
5b: ZINC ION (ZNb)
5c: ZINC ION (ZNc)
5d: ZINC ION (ZNd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
FUL
2
Ligand/Ion
BETA-L-FUCOSE
3
MAN
2
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
24
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(32, 32)
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)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: GC7 (SOFTWARE)
32: GC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:80 , ASN A:85 , SER A:86 , SER A:87 , NAG A:801 , FUL A:802
BINDING SITE FOR RESIDUE NAG A 800
02
AC2
SOFTWARE
NAG A:800
BINDING SITE FOR RESIDUE NAG A 801
03
AC3
SOFTWARE
NAG A:800
BINDING SITE FOR RESIDUE FUL A 802
04
AC4
SOFTWARE
ARG A:147 , ILE A:148 , ASN A:150 , NAG A:811
BINDING SITE FOR RESIDUE NAG A 810
05
AC5
SOFTWARE
NAG A:810
BINDING SITE FOR RESIDUE NAG A 811
06
AC6
SOFTWARE
ASN A:219 , THR A:221 , GLN A:308 , GLU A:309 , NAG A:821
BINDING SITE FOR RESIDUE NAG A 820
07
AC7
SOFTWARE
ASN A:272 , TYR A:330 , GLU A:332 , NAG A:820
BINDING SITE FOR RESIDUE NAG A 821
08
AC8
SOFTWARE
ILE A:194 , ASN A:229 , THR A:231 , GLU A:232 , NAG A:831 , ARG F:33
BINDING SITE FOR RESIDUE NAG A 830
09
AC9
SOFTWARE
NAG A:830 , BMA A:832 , ARG F:33 , ARG F:34 , GLY F:35
BINDING SITE FOR RESIDUE NAG A 831
10
BC1
SOFTWARE
NAG A:831 , MAN A:833 , GLY F:35
BINDING SITE FOR RESIDUE BMA A 832
11
BC2
SOFTWARE
BMA A:832 , GLY F:35 , ILE F:36
BINDING SITE FOR RESIDUE MAN A 833
12
BC3
SOFTWARE
TRP A:187 , ASN A:281
BINDING SITE FOR RESIDUE NAG A 840
13
BC4
SOFTWARE
ASN A:321 , MET A:348 , SER A:349 , ARG A:596 , NAG A:851
BINDING SITE FOR RESIDUE NAG A 850
14
BC5
SOFTWARE
NAG A:850
BINDING SITE FOR RESIDUE NAG A 851
15
BC6
SOFTWARE
ASN A:520 , ARG A:581
BINDING SITE FOR RESIDUE NAG A 860
16
BC7
SOFTWARE
GLU A:73 , ASN A:75 , ASN A:92
BINDING SITE FOR RESIDUE NAG A 870
17
BC8
SOFTWARE
VAL B:78 , ASN B:80 , ASN B:85 , SER B:87 , FUL B:802
BINDING SITE FOR RESIDUE NAG B 800
18
BC9
SOFTWARE
TYR B:83 , NAG B:800
BINDING SITE FOR RESIDUE FUL B 802
19
CC1
SOFTWARE
ARG B:147 , ILE B:148 , ASN B:150
BINDING SITE FOR RESIDUE NAG B 810
20
CC2
SOFTWARE
ASN B:219 , THR B:221 , GLN B:308 , NAG B:821
BINDING SITE FOR RESIDUE NAG B 820
21
CC3
SOFTWARE
TYR B:330 , NAG B:820
BINDING SITE FOR RESIDUE NAG B 821
22
CC4
SOFTWARE
ILE B:194 , ASN B:229 , THR B:231 , GLU B:232 , NAG B:831 , ARG E:33
BINDING SITE FOR RESIDUE NAG B 830
23
CC5
SOFTWARE
NAG B:830 , BMA B:832 , ARG E:33 , ARG E:34 , GLY E:35
BINDING SITE FOR RESIDUE NAG B 831
24
CC6
SOFTWARE
NAG B:831 , MAN B:833 , GLY E:35
BINDING SITE FOR RESIDUE BMA B 832
25
CC7
SOFTWARE
BMA B:832 , GLY E:35 , ILE E:36
BINDING SITE FOR RESIDUE MAN B 833
26
CC8
SOFTWARE
ASN A:450 , TRP B:187 , ASN B:281
BINDING SITE FOR RESIDUE NAG B 840
27
CC9
SOFTWARE
ASN B:321 , NAG B:851
BINDING SITE FOR RESIDUE NAG B 850
28
DC1
SOFTWARE
NAG B:850
BINDING SITE FOR RESIDUE NAG B 851
29
DC2
SOFTWARE
ASN B:520 , ARG B:581
BINDING SITE FOR RESIDUE NAG B 860
30
DC3
SOFTWARE
GLU B:73 , ASN B:74 , ASN B:75 , ASN B:92 , ARG F:352
BINDING SITE FOR RESIDUE NAG B 870
31
GC7
SOFTWARE
HIS E:15 , HIS E:17 , HIS E:214 , ASP E:295
BINDING SITE FOR RESIDUE ZN E 501
32
GC8
SOFTWARE
HIS F:15 , HIS F:17 , HIS F:214 , ASP F:295
BINDING SITE FOR RESIDUE ZN F 501
[
close Site info
]
SAPs(SNPs)/Variants
(3, 6)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_ADA_BOVIN_001 (Q199Q, chain E/F, )
2: VAR_ADA_BOVIN_002 (T246T, chain E/F, )
3: VAR_ADA_BOVIN_003 (R352R, chain E/F, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_ADA_BOVIN_001
*
K
199
Q
ADA_BOVIN
---
---
E/F
Q
199
Q
2
UniProt
VAR_ADA_BOVIN_002
*
A
246
T
ADA_BOVIN
---
---
E/F
T
246
T
3
UniProt
VAR_ADA_BOVIN_003
*
G
352
R
ADA_BOVIN
---
---
E/F
R
352
R
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: A_DEAMINASE (E:291-297,F:291-297)
2: PRO_ENDOPEP_SER (A:605-635,B:605-635)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
A_DEAMINASE
PS00485
Adenosine and AMP deaminase signature.
ADA_BOVIN
291-297
2
E:291-297
F:291-297
-
-
2
PRO_ENDOPEP_SER
PS00708
Prolyl endopeptidase family serine active site.
DPP4_HUMAN
605-635
2
A:605-635
B:605-635
-
-
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
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
(3, 12)
Info
All SCOP Domains
1a: SCOP_d2bgna1 (A:39-508)
1b: SCOP_d2bgnb1 (B:39-508)
1c: SCOP_d2bgnc1 (C:39-508)
1d: SCOP_d2bgnd1 (D:39-508)
2a: SCOP_d2bgna2 (A:509-766)
2b: SCOP_d2bgnb2 (B:509-766)
2c: SCOP_d2bgnc2 (C:509-766)
2d: SCOP_d2bgnd2 (D:509-766)
3a: SCOP_d2bgne1 (E:4-355)
3b: SCOP_d2bgnf1 (F:4-355)
3c: SCOP_d2bgng1 (G:4-355)
3d: SCOP_d2bgnh1 (H:4-355)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
8-bladed beta-propeller
(135)
Superfamily
:
DPP6 N-terminal domain-like
(99)
Family
:
DPP6 N-terminal domain-like
(99)
Protein domain
:
Dipeptidyl peptidase IV/CD26, N-terminal domain
(88)
Human (Homo sapiens) [TaxId: 9606]
(80)
1a
d2bgna1
A:39-508
1b
d2bgnb1
B:39-508
1c
d2bgnc1
C:39-508
1d
d2bgnd1
D:39-508
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
alpha/beta-Hydrolases
(971)
Superfamily
:
alpha/beta-Hydrolases
(971)
Family
:
DPP6 catalytic domain-like
(63)
Protein domain
:
Dipeptidyl peptidase IV/CD26, C-terminal domain
(62)
Human (Homo sapiens) [TaxId: 9606]
(54)
2a
d2bgna2
A:509-766
2b
d2bgnb2
B:509-766
2c
d2bgnc2
C:509-766
2d
d2bgnd2
D:509-766
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Metallo-dependent hydrolases
(273)
Family
:
Adenosine/AMP deaminase
(36)
Protein domain
:
Adenosine deaminase (ADA)
(24)
Cow (Bos taurus) [TaxId: 9913]
(12)
3a
d2bgne1
E:4-355
3b
d2bgnf1
F:4-355
3c
d2bgng1
G:4-355
3d
d2bgnh1
H:4-355
[
close SCOP info
]
CATH Domains
(3, 12)
Info
all CATH domains
1a: CATH_2bgnA01 (A:39-51,A:506-766)
1b: CATH_2bgnB01 (B:39-51,B:506-766)
1c: CATH_2bgnC01 (C:39-51,C:506-766)
1d: CATH_2bgnD01 (D:39-51,D:506-766)
2a: CATH_2bgnE00 (E:4-355)
2b: CATH_2bgnF00 (F:4-355)
2c: CATH_2bgnG00 (G:4-355)
2d: CATH_2bgnH00 (H:4-355)
3a: CATH_2bgnA02 (A:55-497)
3b: CATH_2bgnB02 (B:55-497)
3c: CATH_2bgnC02 (C:55-497)
3d: CATH_2bgnD02 (D:55-497)
View:
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Classes
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)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1820, no name defined]
(692)
Human (Homo sapiens)
(118)
1a
2bgnA01
A:39-51,A:506-766
1b
2bgnB01
B:39-51,B:506-766
1c
2bgnC01
C:39-51,C:506-766
1d
2bgnD01
D:39-51,D:506-766
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Metal-dependent hydrolases
(190)
Human (Homo sapiens)
(5)
2a
2bgnE00
E:4-355
2b
2bgnF00
F:4-355
2c
2bgnG00
G:4-355
2d
2bgnH00
H:4-355
Class
:
Mainly Beta
(13760)
Architecture
:
8 Propellor
(110)
Topology
:
Methanol Dehydrogenase; Chain A
(110)
Homologous Superfamily
:
[code=2.140.10.30, no name defined]
(74)
Human (Homo sapiens)
(59)
3a
2bgnA02
A:55-497
3b
2bgnB02
B:55-497
3c
2bgnC02
C:55-497
3d
2bgnD02
D:55-497
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
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