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2R3C
Asym. Unit
Info
Asym.Unit (32 KB)
Biol.Unit 1 (39 KB)
Biol.Unit 2 (36 KB)
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(1)
Title
:
STRUCTURE OF THE GP41 N-PEPTIDE IN COMPLEX WITH THE HIV ENTRY INHIBITOR PIE1
Authors
:
A. P. Vandemark, B. Welch, A. Heroux, C. P. Hill, M. S. Kay
Date
:
29 Aug 07 (Deposition) - 02 Oct 07 (Release) - 15 Feb 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.73
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,D (3x)
Biol. Unit 2: B,C (3x)
Keywords
:
Hiv, Inhibitor, Viral Entry, Pie, Viral Protein, Viral Protein-Viral Protein Inhibitor Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. D. Welch, A. P. Vandemark, A. Heroux, C. P. Hill, M. S. Kay
Potent D-Peptide Inhibitors Of Hiv-1 Entry
Proc. Natl. Acad. Sci. Usa V. 104 16828 2007
[
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Hetero Components
(13, 38)
Info
All Hetero Components
01a: ACETYL GROUP (ACEa)
02a: CHLORIDE ION (CLa)
03a: D-ALANINE (DALa)
03b: D-ALANINE (DALb)
03c: D-ALANINE (DALc)
03d: D-ALANINE (DALd)
03e: D-ALANINE (DALe)
03f: D-ALANINE (DALf)
04a: D-CYSTEINE (DCYa)
04b: D-CYSTEINE (DCYb)
04c: D-CYSTEINE (DCYc)
04d: D-CYSTEINE (DCYd)
05a: D-GLUTAMIC ACID (DGLa)
05b: D-GLUTAMIC ACID (DGLb)
05c: D-GLUTAMIC ACID (DGLc)
05d: D-GLUTAMIC ACID (DGLd)
06a: D-GLUTAMINE (DGNa)
06b: D-GLUTAMINE (DGNb)
07a: D-LEUCINE (DLEa)
07b: D-LEUCINE (DLEb)
08a: D-LYSINE (DLYa)
09a: D-PROLINE (DPRa)
09b: D-PROLINE (DPRb)
10a: D-SERINE (DSNa)
10b: D-SERINE (DSNb)
11a: D-TRYPTOPHAN (DTRa)
11b: D-TRYPTOPHAN (DTRb)
11c: D-TRYPTOPHAN (DTRc)
11d: D-TRYPTOPHAN (DTRd)
12a: AMINO GROUP (NH2a)
12b: AMINO GROUP (NH2b)
12c: AMINO GROUP (NH2c)
12d: AMINO GROUP (NH2d)
13a: YTTRIUM (III) ION (YT3a)
13b: YTTRIUM (III) ION (YT3b)
13c: YTTRIUM (III) ION (YT3c)
13d: YTTRIUM (III) ION (YT3d)
13e: YTTRIUM (III) ION (YT3e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACE
1
Mod. Amino Acid
ACETYL GROUP
2
CL
1
Ligand/Ion
CHLORIDE ION
3
DAL
6
Mod. Amino Acid
D-ALANINE
4
DCY
4
Mod. Amino Acid
D-CYSTEINE
5
DGL
4
Mod. Amino Acid
D-GLUTAMIC ACID
6
DGN
2
Mod. Amino Acid
D-GLUTAMINE
7
DLE
2
Mod. Amino Acid
D-LEUCINE
8
DLY
1
Mod. Amino Acid
D-LYSINE
9
DPR
2
Mod. Amino Acid
D-PROLINE
10
DSN
2
Mod. Amino Acid
D-SERINE
11
DTR
4
Mod. Amino Acid
D-TRYPTOPHAN
12
NH2
4
Mod. Amino Acid
AMINO GROUP
13
YT3
5
Ligand/Ion
YTTRIUM (III) ION
[
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ASP A:7 , GLU A:10 , HOH A:635 , DGL C:9 , HOH C:24 , HOH C:30
BINDING SITE FOR RESIDUE YT3 A 501
2
AC2
SOFTWARE
GLN A:16
BINDING SITE FOR RESIDUE YT3 A 503
3
AC3
SOFTWARE
THR A:33
BINDING SITE FOR RESIDUE CL A 601
4
AC4
SOFTWARE
ASP B:7 , GLU B:10 , HOH B:510 , HOH B:526 , DGL D:9 , HOH D:29
BINDING SITE FOR RESIDUE YT3 B 502
5
AC5
SOFTWARE
GLN B:16
BINDING SITE FOR RESIDUE YT3 B 504
6
AC6
SOFTWARE
LEU B:30 , THR B:33
BINDING SITE FOR RESIDUE YT3 B 505
7
AC7
SOFTWARE
GLU A:10 , GLU A:13 , SER A:14 , LYS A:17 , ASN A:21 , YT3 A:501 , HOH A:632 , LEU B:29 , LEU B:32 , VAL B:34 , TRP B:35 , GLY B:36 , LYS B:38 , GLN B:41 , LEU B:45 , HOH B:538 , HOH C:20 , HOH C:22 , HOH C:23 , HOH C:24 , HOH C:25 , HOH C:27 , HOH C:29 , HOH C:30 , HOH C:36 , HOH C:37 , HOH C:38
BINDING SITE FOR CHAIN C OF HIV ENTRY INHIBITOR PIE1
8
AC8
SOFTWARE
LEU A:29 , LEU A:32 , VAL A:34 , TRP A:35 , GLY A:36 , ILE A:37 , LYS A:38 , GLN A:41 , HOH A:688 , GLU B:10 , GLU B:13 , SER B:14 , LYS B:17 , ASN B:21 , YT3 B:502 , HOH B:555 , HOH D:18 , HOH D:19 , HOH D:20 , HOH D:21 , HOH D:22 , HOH D:25 , HOH D:26 , HOH D:28 , HOH D:29 , HOH D:30 , HOH D:32 , HOH D:33 , HOH D:34 , HOH D:35 , HOH D:36 , HOH D:37 , HOH D:38
BINDING SITE FOR CHAIN D OF HIV ENTRY INHIBITOR PIE1
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
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Sorry, no Info available
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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.
SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d2r3ca1 (A:1-45)
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Protein Domains
(
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(
)
Organisms
(
)
(
)
Class
:
Coiled coil proteins
(689)
Fold
:
Stalk segment of viral fusion proteins
(231)
Superfamily
:
Virus ectodomain
(48)
Family
:
Virus ectodomain
(44)
Protein domain
:
Retrovius gp41 protease-resistant core
(35)
Synthetic construct [TaxId: 32630]
(1)
1a
d2r3ca1
A:1-45
[
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]
CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_2r3cA00 (A:1-45)
1b: CATH_2r3cB00 (B:4-45)
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)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Single alpha-helices involved in coiled-coils or other helix-helix interfaces
(552)
Homologous Superfamily
:
[code=1.20.5.170, no name defined]
(60)
[unclassified]
(20)
1a
2r3cA00
A:1-45
1b
2r3cB00
B:4-45
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Backbone
Sidechain
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Asymmetric Unit 1
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Example Commands
Example Command
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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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Asym.Unit (32 KB)
Header - Asym.Unit
Biol.Unit 1 (39 KB)
Header - Biol.Unit 1
Biol.Unit 2 (36 KB)
Header - Biol.Unit 2
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