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Getting 'Exon' information from database.
1JYD
Asym. Unit
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Asym.Unit (39 KB)
Biol.Unit 1 (35 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF RECOMBINANT HUMAN SERUM RETINOL-BINDING PROTEIN AT 1.7 A RESOLUTION
Authors
:
L. H. Greene, E. D. Chrysina, L. I. Irons, A. C. Papageorgiou, K. R. Achar
Date
:
12 Sep 01 (Deposition) - 01 Jul 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Retinol Binding Protein, Lipocalin Superfamily, Beta Barrel, Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
L. H. Greene, E. D. Chrysina, L. I. Irons, A. C. Papageorgiou, K. R. Acharya, K. Brew
Role Of Conserved Residues In Structure And Stability: Tryptophans Of Human Serum Retinol-Binding Protein, A Model For The Lipocalin Superfamily
Protein Sci. V. 10 2301 2001
(for further references see the
PDB file header
)
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Hetero Components
(1, 6)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
6
Ligand/Ion
GLYCEROL
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Sites
(6, 6)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:29 , PRO A:32 , LEU A:35 , PHE A:36 , LEU A:37 , ARG A:121 , TYR A:133 , PHE A:135 , GOL A:601 , HOH A:641
BINDING SITE FOR RESIDUE GOL A 600
2
AC2
SOFTWARE
LEU A:37 , MET A:73 , MET A:88 , TYR A:90 , GOL A:600 , HOH A:780
BINDING SITE FOR RESIDUE GOL A 601
3
AC3
SOFTWARE
PHE A:45 , HIS A:104 , PHE A:135 , PHE A:137 , HOH A:780
BINDING SITE FOR RESIDUE GOL A 602
4
AC4
SOFTWARE
THR A:23 , HOH A:634
BINDING SITE FOR RESIDUE GOL A 603
5
AC5
SOFTWARE
ASP A:126 , THR A:128 , HOH A:618 , HOH A:619 , HOH A:705 , HOH A:720 , HOH A:727 , HOH A:746 , HOH A:750 , HOH A:758
BINDING SITE FOR RESIDUE GOL A 607
6
AC6
SOFTWARE
HOH A:673 , HOH A:728
BINDING SITE FOR RESIDUE GOL A 608
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SAPs(SNPs)/Variants
(2, 2)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_009276 (I41N, chain A, )
2: VAR_009277 (G75D, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_009276
I
59
N
RET4_HUMAN
Disease (RDCCAS)
121918584
A
I
41
N
2
UniProt
VAR_009277
G
93
D
RET4_HUMAN
Disease (RDCCAS)
121918585
A
G
75
D
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (A:14-27)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LIPOCALIN
PS00213
Lipocalin signature.
RET4_HUMAN
32-45
1
A:14-27
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Exons
(5, 5)
Info
All Exons
Exon 1.4a (A:1-19)
Exon 1.5a (A:20-65)
Exon 1.6 (A:65-101)
Exon 1.8a (A:101-172)
Exon 1.9c (A:172-174)
View:
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All Exon Boundaries
1: Boundary 1.2a/1.4a
2: Boundary 1.4a/1.5a
3: Boundary 1.5a/1.6
4: Boundary 1.6/1.8a
5: Boundary 1.8a/1.9c
6: Boundary 1.9c/-
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
1.2a
ENST00000371467
2a
ENSE00001455291
chr10:
95361420-95361119
302
RET4_HUMAN
-
0
0
-
-
1.4a
ENST00000371467
4a
ENSE00001455290
chr10:
95360803-95360675
129
RET4_HUMAN
1-37
37
1
A:1-19
19
1.5a
ENST00000371467
5a
ENSE00000932979
chr10:
95360560-95360424
137
RET4_HUMAN
38-83
46
1
A:20-65
46
1.6
ENST00000371467
6
ENSE00000932978
chr10:
95360256-95360150
107
RET4_HUMAN
83-119
37
1
A:65-101
37
1.8a
ENST00000371467
8a
ENSE00000932977
chr10:
95353792-95353580
213
RET4_HUMAN
119-190
72
1
A:101-172
72
1.9c
ENST00000371467
9c
ENSE00001455294
chr10:
95351869-95351444
426
RET4_HUMAN
190-201
12
1
A:172-174
3
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SCOP Domains
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1jyda_ (A:)
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Classes
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)
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Folds
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Lipocalins
(514)
Superfamily
:
Lipocalins
(514)
Family
:
Retinol binding protein-like
(261)
Protein domain
:
Retinol binding protein
(23)
Human (Homo sapiens) [TaxId: 9606]
(9)
1a
d1jyda_
A:
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CATH Domains
(1, 1)
Info
all CATH domains
1a: CATH_1jydA00 (A:1-174)
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)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Lipocalin
(526)
Homologous Superfamily
:
[code=2.40.128.20, no name defined]
(352)
Human (Homo sapiens)
(91)
1a
1jydA00
A:1-174
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_Lipocalin_1jydA01 (A:21-170)
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)
Clan
:
Calycin
(163)
Family
:
Lipocalin
(123)
Homo sapiens (Human)
(41)
1a
Lipocalin-1jydA01
A:21-170
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Chain A
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Asym.Unit (39 KB)
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