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1B5V
Asym. Unit
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Asym.Unit (28 KB)
Biol.Unit 1 (25 KB)
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(1)
Title
:
CONTRIBUTION OF HYDROGEN BONDS TO THE CONFORMATIONAL STABILITY OF HUMAN LYSOZYME: CALORIMETRY AND X-RAY ANALYSIS OF SIX SER->ALA MUTANTS
Authors
:
K. Takano, Y. Yamagata, M. Kubota, J. Funahashi, S. Fujii, K. Yutani
Date
:
11 Jan 99 (Deposition) - 20 Jan 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.17
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Hydrogen Bond, Stability, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. Takano, Y. Yamagata, M. Kubota, J. Funahashi, S. Fujii, K. Yutani
Contribution Of Hydrogen Bonds To The Conformational Stability Of Human Lysozyme: Calorimetry And X-Ray Analysis Of Six Ser --> Ala Mutants.
Biochemistry V. 38 6623 1999
(for further references see the
PDB file header
)
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Hetero Components
(2, 3)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
2a: SODIUM ION (NAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
2
Ligand/Ion
CHLORIDE ION
2
NA
1
Ligand/Ion
SODIUM ION
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:61 , ARG A:62 , TYR A:63 , CYS A:65 , ALA A:73 , VAL A:74
BINDING SITE FOR RESIDUE NA A 132
2
AC2
SOFTWARE
ASN A:27 , ASN A:66 , HOH A:143 , HOH A:188 , HOH A:191
BINDING SITE FOR RESIDUE CL A 133
3
AC3
SOFTWARE
SER A:80 , ARG A:107
BINDING SITE FOR RESIDUE CL A 246
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SAPs(SNPs)/Variants
(3, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_004280 (I56T, chain A, )
2: VAR_004281 (D67H, chain A, )
3: VAR_012050 (T70N, chain A, )
View:
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Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_004280
I
74
T
LYSC_HUMAN
Disease (AMYL8)
---
A
I
56
T
2
UniProt
VAR_004281
D
85
H
LYSC_HUMAN
Disease (AMYL8)
---
A
D
67
H
3
UniProt
VAR_012050
T
88
N
LYSC_HUMAN
Polymorphism
1800973
A
T
70
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(2, 2)
Info
All PROSITE Patterns/Profiles
1: LACTALBUMIN_LYSOZYME_2 (A:1-130)
2: LACTALBUMIN_LYSOZYME_1 (A:77-95)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LACTALBUMIN_LYSOZYME_2
PS51348
Alpha-lactalbumin / lysozyme C family profile.
LYSC_HUMAN
19-148
1
A:1-130
2
LACTALBUMIN_LYSOZYME_1
PS00128
Alpha-lactalbumin / lysozyme C signature.
LYSC_HUMAN
95-113
1
A:77-95
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Exons
(4, 4)
Info
All Exons
Exon 1.1 (A:1-28)
Exon 1.2 (A:28-83)
Exon 1.3 (A:83-109)
Exon 1.4 (A:109-130)
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
5: Boundary 1.4/-
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000261267
1
ENSE00000920754
chr12:
69742134-69742324
191
LYSC_HUMAN
1-46
46
1
A:1-28
28
1.2
ENST00000261267
2
ENSE00000920753
chr12:
69743888-69744052
165
LYSC_HUMAN
46-101
56
1
A:28-83
56
1.3
ENST00000261267
3
ENSE00000920752
chr12:
69746000-69746078
79
LYSC_HUMAN
101-127
27
1
A:83-109
27
1.4
ENST00000261267
4
ENSE00001263888
chr12:
69746933-69748013
1081
LYSC_HUMAN
127-148
22
1
A:109-130
22
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1b5va_ (A:)
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)
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)
Folds
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)
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)
(
)
Families
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Lysozyme-like
(1361)
Superfamily
:
Lysozyme-like
(1361)
Family
:
C-type lysozyme
(738)
Protein domain
:
Lysozyme
(696)
Human (Homo sapiens) [TaxId: 9606]
(200)
1a
d1b5va_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1b5vA00 (A:1-130)
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(
)
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)
(
)
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)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Lysozyme
(1131)
Homologous Superfamily
:
[code=1.10.530.10, no name defined]
(605)
Human (Homo sapiens)
(206)
1a
1b5vA00
A:1-130
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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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