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2AJB
Biol. Unit 2
Info
Asym.Unit (520 KB)
Biol.Unit 1 (258 KB)
Biol.Unit 2 (261 KB)
Biol.Unit 3 (510 KB)
Biol.Unit 4 (509 KB)
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(1)
Title
:
PORCINE DIPEPTIDYL PEPTIDASE IV (CD26) IN COMPLEX WITH THE TRIPEPTIDE TERT-BUTYL-GLY-L-PRO-L-ILE (TBU-GPI)
Authors
:
M. Engel, T. Hoffmann, S. Manhart, U. Heiser, S. Chambre, R. Huber, H. U. W. Bode
Date
:
01 Aug 05 (Deposition) - 28 Feb 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.75
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B,C,D (1x)
Biol. Unit 4: A,B,C,D (1x)
Keywords
:
Serine Protease, Dipeptidyl Peptidase, Alpha/Beta-Hydrolase, Beta- Propeller, Oxyanion Hole, Substrate Channeling, Drug Design, Diabetes Mellitus, Flexibility, Hydrolase-Hydrolase Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Engel, T. Hoffmann, S. Manhart, U. Heiser, S. Chambre, R. Huber, H. U. Demuth, W. Bode
Rigidity And Flexibility Of Dipeptidyl Peptidase Iv: Crysta Structures Of And Docking Experiments With Dpiv.
J. Mol. Biol. V. 355 768 2006
[
close entry info
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Hetero Components
(4, 22)
Info
All Hetero Components
1a: 3-METHYL-L-VALYL-L-PROLYL-L-ISOLEU... (0QGa)
1b: 3-METHYL-L-VALYL-L-PROLYL-L-ISOLEU... (0QGb)
1c: 3-METHYL-L-VALYL-L-PROLYL-L-ISOLEU... (0QGc)
1d: 3-METHYL-L-VALYL-L-PROLYL-L-ISOLEU... (0QGd)
2a: BETA-D-MANNOSE (BMAa)
2b: BETA-D-MANNOSE (BMAb)
3a: N-ACETYL-D-GLUCOSAMINE (NAGa)
3aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
3ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
3ac: N-ACETYL-D-GLUCOSAMINE (NAGac)
3ad: N-ACETYL-D-GLUCOSAMINE (NAGad)
3ae: N-ACETYL-D-GLUCOSAMINE (NAGae)
3af: N-ACETYL-D-GLUCOSAMINE (NAGaf)
3ag: N-ACETYL-D-GLUCOSAMINE (NAGag)
3b: N-ACETYL-D-GLUCOSAMINE (NAGb)
3c: N-ACETYL-D-GLUCOSAMINE (NAGc)
3d: N-ACETYL-D-GLUCOSAMINE (NAGd)
3e: N-ACETYL-D-GLUCOSAMINE (NAGe)
3f: N-ACETYL-D-GLUCOSAMINE (NAGf)
3g: N-ACETYL-D-GLUCOSAMINE (NAGg)
3h: N-ACETYL-D-GLUCOSAMINE (NAGh)
3i: N-ACETYL-D-GLUCOSAMINE (NAGi)
3j: N-ACETYL-D-GLUCOSAMINE (NAGj)
3k: N-ACETYL-D-GLUCOSAMINE (NAGk)
3l: N-ACETYL-D-GLUCOSAMINE (NAGl)
3m: N-ACETYL-D-GLUCOSAMINE (NAGm)
3n: N-ACETYL-D-GLUCOSAMINE (NAGn)
3o: N-ACETYL-D-GLUCOSAMINE (NAGo)
3p: N-ACETYL-D-GLUCOSAMINE (NAGp)
3q: N-ACETYL-D-GLUCOSAMINE (NAGq)
3r: N-ACETYL-D-GLUCOSAMINE (NAGr)
3s: N-ACETYL-D-GLUCOSAMINE (NAGs)
3t: N-ACETYL-D-GLUCOSAMINE (NAGt)
3u: N-ACETYL-D-GLUCOSAMINE (NAGu)
3v: N-ACETYL-D-GLUCOSAMINE (NAGv)
3w: N-ACETYL-D-GLUCOSAMINE (NAGw)
3x: N-ACETYL-D-GLUCOSAMINE (NAGx)
3y: N-ACETYL-D-GLUCOSAMINE (NAGy)
3z: N-ACETYL-D-GLUCOSAMINE (NAGz)
4a: SULFATE ION (SO4a)
4b: SULFATE ION (SO4b)
4c: SULFATE ION (SO4c)
4d: SULFATE ION (SO4d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
0QG
2
Ligand/Ion
3-METHYL-L-VALYL-L-PROLYL-L-ISOLEUCINE
2
BMA
1
Ligand/Ion
BETA-D-MANNOSE
3
NAG
17
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
4
SO4
2
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(19, 19)
Info
All Sites
01: BC1 (SOFTWARE)
02: BC4 (SOFTWARE)
03: BC5 (SOFTWARE)
04: BC6 (SOFTWARE)
05: BC7 (SOFTWARE)
06: BC8 (SOFTWARE)
07: BC9 (SOFTWARE)
08: CC1 (SOFTWARE)
09: CC2 (SOFTWARE)
10: CC3 (SOFTWARE)
11: CC4 (SOFTWARE)
12: CC5 (SOFTWARE)
13: CC6 (SOFTWARE)
14: CC7 (SOFTWARE)
15: DC3 (SOFTWARE)
16: DC4 (SOFTWARE)
17: DC5 (SOFTWARE)
18: DC6 (SOFTWARE)
19: DC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
BC1
SOFTWARE
ASN B:279 , HOH B:1521 , TYR D:285 , VAL D:288 , LEU D:294
BINDING SITE FOR RESIDUE NAG B 772A
02
BC4
SOFTWARE
ARG C:125 , GLU C:205 , GLU C:206 , TYR C:547 , SER C:630 , TYR C:631 , TYR C:662 , TYR C:666 , ASN C:710 , HIS C:740
BINDING SITE FOR RESIDUE 0QG C 802
03
BC5
SOFTWARE
LEU C:78 , ASN C:85 , SER C:87 , HOH C:1593
BINDING SITE FOR RESIDUE NAG C 767A
04
BC6
SOFTWARE
GLU C:73 , ASN C:74 , ASN C:75 , ASN C:92 , HOH C:1697
BINDING SITE FOR RESIDUE NAG C 768A
05
BC7
SOFTWARE
ILE C:194 , ASN C:229 , THR C:231 , GLU C:232 , HOH C:1528 , HOH C:1556 , HOH C:1646
BINDING SITE FOR RESIDUE NAG C 769A
06
BC8
SOFTWARE
VAL A:288 , ASN C:279 , HOH C:1599
BINDING SITE FOR RESIDUE NAG C 770A
07
BC9
SOFTWARE
ASN C:321 , SER C:349 , ARG C:596 , HOH C:1518 , HOH C:1653
BINDING SITE FOR RESIDUE NAG C 771A
08
CC1
SOFTWARE
ALA C:360 , GLU C:361 , HIS C:363 , GLY C:406 , ILE C:407 , HOH C:1523
BINDING SITE FOR RESIDUE SO4 C 1502
09
CC2
SOFTWARE
ARG D:125 , GLU D:205 , GLU D:206 , TYR D:547 , SER D:630 , TYR D:631 , TYR D:662 , TYR D:666 , ASN D:710 , VAL D:711 , HIS D:740
BINDING SITE FOR RESIDUE 0QG D 802
10
CC3
SOFTWARE
ASN D:85 , SER D:87
BINDING SITE FOR RESIDUE NAG D 767A
11
CC4
SOFTWARE
ASN D:279 , HOH D:1546 , HOH D:1670 , HOH D:1707
BINDING SITE FOR RESIDUE NAG D 773A
12
CC5
SOFTWARE
GLY D:599 , THR D:600 , MET D:638 , ASN D:685 , SER D:686 , ARG D:691 , NAG D:777B , HOH D:1514 , HOH D:1665
BINDING SITE FOR RESIDUE NAG D 776A
13
CC6
SOFTWARE
ARG D:597 , GLU D:604 , TYR D:682 , NAG D:776A , HOH D:1622 , HOH D:1685
BINDING SITE FOR RESIDUE NAG D 777B
14
CC7
SOFTWARE
ALA D:360 , GLU D:361 , HIS D:363 , GLY D:406 , ILE D:407 , HOH D:1550 , HOH D:1552 , HOH D:1600
BINDING SITE FOR RESIDUE SO4 D 1503
15
DC3
SOFTWARE
ARG C:597 , GLY C:599 , THR C:600 , GLU C:604 , TYR C:682 , ASN C:685 , ARG C:691 , HOH C:1573 , HOH C:1610 , HOH C:1621 , HOH C:1633
BINDING SITE FOR CHAIN C OF SUGAR BOUND TO ASN C 685 RESIDUES 772 TO 773
16
DC4
SOFTWARE
GLU D:73 , ASN D:74 , ASN D:75 , ASN D:92 , ILE D:348 , GLU D:378 , HOH D:1602 , HOH D:1709
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 92 RESIDUES 768 TO 770
17
DC5
SOFTWARE
ASN D:229 , THR D:231 , GLU D:232 , HOH D:1710
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 229 RESIDUES 771 TO 772
18
DC6
SOFTWARE
ASN D:321 , SER D:349 , ARG D:596 , GLU D:677 , HOH D:1638 , HOH D:1696
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 321 RESIDUES 774 TO 775
19
DC7
SOFTWARE
ARG D:597 , GLY D:599 , THR D:600 , GLU D:604 , MET D:638 , TYR D:682 , ASN D:685 , SER D:686 , ARG D:691 , HOH D:1514 , HOH D:1622 , HOH D:1665 , HOH D:1685
BINDING SITE FOR CHAIN D OF SUGAR BOUND TO ASN D 685 RESIDUES 776 TO 777
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: PRO_ENDOPEP_SER (C:605-635,D:605-635)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PRO_ENDOPEP_SER
PS00708
Prolyl endopeptidase family serine active site.
DPP4_PIG
605-635
2
-
-
C:605-635
D:605-635
[
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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
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2ajba1 (A:39-508)
1b: SCOP_d2ajbb1 (B:39-508)
1c: SCOP_d2ajbc1 (C:39-508)
1d: SCOP_d2ajbd1 (D:39-508)
2a: SCOP_d2ajba2 (A:509-766)
2b: SCOP_d2ajbb2 (B:509-766)
2c: SCOP_d2ajbc2 (C:509-766)
2d: SCOP_d2ajbd2 (D:509-766)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
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(
)
(
)
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)
Pig (Sus scrofa) [TaxId: 9823]
(8)
1a
d2ajba1
A:39-508
1b
d2ajbb1
B:39-508
1c
d2ajbc1
C:39-508
1d
d2ajbd1
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)
Pig (Sus scrofa) [TaxId: 9823]
(8)
2a
d2ajba2
A:509-766
2b
d2ajbb2
B:509-766
2c
d2ajbc2
C:509-766
2d
d2ajbd2
D:509-766
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2ajbA02 (A:509-766)
1b: CATH_2ajbB02 (B:509-766)
1c: CATH_2ajbC02 (C:509-766)
1d: CATH_2ajbD02 (D:509-766)
2a: CATH_2ajbA01 (A:39-508)
2b: CATH_2ajbB01 (B:39-508)
2c: CATH_2ajbC01 (C:39-508)
2d: CATH_2ajbD01 (D:39-508)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
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)
Pig (Sus scrofa)
(22)
1a
2ajbA02
A:509-766
1b
2ajbB02
B:509-766
1c
2ajbC02
C:509-766
1d
2ajbD02
D:509-766
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)
Pig (Sus scrofa)
(8)
2a
2ajbA01
A:39-508
2b
2ajbB01
B:39-508
2c
2ajbC01
C:39-508
2d
2ajbD01
D:39-508
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Asymmetric Unit 1
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Asym.Unit (520 KB)
Header - Asym.Unit
Biol.Unit 1 (258 KB)
Header - Biol.Unit 1
Biol.Unit 2 (261 KB)
Header - Biol.Unit 2
Biol.Unit 3 (510 KB)
Header - Biol.Unit 3
Biol.Unit 4 (509 KB)
Header - Biol.Unit 4
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