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1MFU
Asym. Unit
Info
Asym.Unit (97 KB)
Biol.Unit 1 (91 KB)
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(1)
Title
:
PROBING THE ROLE OF A MOBILE LOOP IN HUMAN SALIVARY AMYLASE: STRUCTURAL STUDIES ON THE LOOP-DELETED MUTANT
Authors
:
N. Ramasubbu, C. Ragunath, P. J. Mishra
Date
:
13 Aug 02 (Deposition) - 20 Nov 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Amylase, Acarbose Complex, Mutageneis, Mobile Loop, Deletion Mutant, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Ramasubbu, C. Ragunath, P. J. Mishra
Probing The Role Of A Mobile Loop In Substrate Binding And Enzyme Activity Of Human Salivary Amylase.
J. Mol. Biol. V. 325 1061 2003
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(6, 21)
Info
All Hetero Components
1a: 4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOS... (AGLa)
1b: 4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOS... (AGLb)
1c: 4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOS... (AGLc)
1d: 4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOS... (AGLd)
2a: CALCIUM ION (CAa)
3a: CHLORIDE ION (CLa)
4a: ALPHA-D-GLUCOSE (GLCa)
4b: ALPHA-D-GLUCOSE (GLCb)
4c: ALPHA-D-GLUCOSE (GLCc)
4d: ALPHA-D-GLUCOSE (GLCd)
4e: ALPHA-D-GLUCOSE (GLCe)
4f: ALPHA-D-GLUCOSE (GLCf)
4g: ALPHA-D-GLUCOSE (GLCg)
4h: ALPHA-D-GLUCOSE (GLCh)
4i: ALPHA-D-GLUCOSE (GLCi)
4j: ALPHA-D-GLUCOSE (GLCj)
5a: 5-HYDROXYMETHYL-CHONDURITOL (HMCa)
5b: 5-HYDROXYMETHYL-CHONDURITOL (HMCb)
5c: 5-HYDROXYMETHYL-CHONDURITOL (HMCc)
5d: 5-HYDROXYMETHYL-CHONDURITOL (HMCd)
6a: PYROGLUTAMIC ACID (PCAa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
AGL
4
Ligand/Ion
4,6-DIDEOXY-4-AMINO-ALPHA-D-GLUCOSE
2
CA
1
Ligand/Ion
CALCIUM ION
3
CL
1
Ligand/Ion
CHLORIDE ION
4
GLC
10
Ligand/Ion
ALPHA-D-GLUCOSE
5
HMC
4
Ligand/Ion
5-HYDROXYMETHYL-CHONDURITOL
6
PCA
1
Mod. Amino Acid
PYROGLUTAMIC ACID
[
close Hetero Component info
]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:105 , ASP A:147 , AGL A:499 , HOH A:970
BINDING SITE FOR RESIDUE HMC A 498
02
AC2
SOFTWARE
GLN A:63 , SER A:163 , HMC A:498 , GLC A:500
BINDING SITE FOR RESIDUE AGL A 499
03
AC3
SOFTWARE
TRP A:58 , TRP A:59 , TYR A:62 , GLN A:63 , ASP A:300 , AGL A:499 , HMC A:501 , AGL A:502 , HOH A:863
BINDING SITE FOR RESIDUE GLC A 500
04
AC4
SOFTWARE
TRP A:58 , TYR A:62 , HIS A:101 , ARG A:195 , ASP A:197 , GLU A:233 , HIS A:299 , ASP A:300 , GLC A:500 , AGL A:502
BINDING SITE FOR RESIDUE HMC A 501
05
AC5
SOFTWARE
ALA A:198 , HIS A:201 , GLU A:233 , ASP A:300 , GLC A:500 , HMC A:501 , GLC A:503 , HOH A:744
BINDING SITE FOR RESIDUE AGL A 502
06
AC6
SOFTWARE
GLC A:503
BINDING SITE FOR RESIDUE GLC A 504
07
AC7
SOFTWARE
TYR A:151 , LYS A:200 , GLU A:240 , AGL A:502 , GLC A:504 , HOH A:982
BINDING SITE FOR RESIDUE GLC A 503
08
AC8
SOFTWARE
AGL A:550 , HOH A:961
BINDING SITE FOR RESIDUE HMC A 549
09
AC9
SOFTWARE
LYS A:261 , TRP A:284 , HMC A:549 , GLC A:551
BINDING SITE FOR RESIDUE AGL A 550
10
BC1
SOFTWARE
ARG A:20 , TYR A:276 , ASP A:358 , VAL A:361 , LYS A:363 , GLU A:364 , GLC A:551 , HOH A:817 , HOH A:832 , HOH A:952
BINDING SITE FOR RESIDUE GLC A 552
11
BC2
SOFTWARE
GLU A:272 , TYR A:276 , ASN A:279 , AGL A:550 , GLC A:552
BINDING SITE FOR RESIDUE GLC A 551
12
BC3
SOFTWARE
TRP A:203 , GLC A:575
BINDING SITE FOR RESIDUE GLC A 576
13
BC4
SOFTWARE
LYS A:140 , TRP A:203 , GLY A:205 , ASP A:206 , GLC A:576 , HOH A:789 , HOH A:867 , HOH A:933
BINDING SITE FOR RESIDUE GLC A 575
14
BC5
SOFTWARE
VAL A:349 , TRP A:352 , ASP A:370 , THR A:371 , ARG A:384 , ARG A:387 , ASP A:451 , AGL A:600 , HOH A:927
BINDING SITE FOR RESIDUE HMC A 599
15
BC6
SOFTWARE
ASN A:53 , PRO A:54 , ARG A:382 , TRP A:383 , ARG A:384 , GLN A:385 , HMC A:599 , GLC A:601
BINDING SITE FOR RESIDUE AGL A 600
16
BC7
SOFTWARE
ALA A:313 , GLC A:601 , HOH A:901
BINDING SITE FOR RESIDUE GLC A 602
17
BC8
SOFTWARE
ALA A:313 , LYS A:317 , THR A:372 , TRP A:383 , GLN A:385 , AGL A:600 , GLC A:602 , HOH A:758 , HOH A:846 , HOH A:901
BINDING SITE FOR RESIDUE GLC A 601
18
BC9
SOFTWARE
SER A:132 , TRP A:134 , ASP A:135 , LYS A:172 , TYR A:174 , HOH A:968 , HOH A:988
BINDING SITE FOR RESIDUE GLC A 625
19
CC1
SOFTWARE
ASN A:100 , ARG A:158 , ASP A:167 , HIS A:201 , HOH A:755 , HOH A:763 , HOH A:799
BINDING SITE FOR RESIDUE CA A 492
20
CC2
SOFTWARE
ARG A:195 , ASN A:298 , ARG A:332
BINDING SITE FOR RESIDUE CL A 493
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(10, 10)
Info
All Exons
Exon 1.3 (A:1-41)
Exon 1.4b (A:42-90)
Exon 1.5 (A:91-156)
Exon 1.6b (A:157-233)
Exon 1.7 (A:234-278)
Exon 1.8 (A:278-314 (gaps))
Exon 1.9 (A:314-347)
Exon 1.10a (A:348-387)
Exon 1.11 (A:387-429)
Exon 1.13a (A:429-491)
View:
Select:
Label:
All Exon Boundaries
01: Boundary 1.1c/1.3
02: Boundary 1.3/1.4b
03: Boundary 1.4b/1.5
04: Boundary 1.5/1.6b
05: Boundary 1.6b/1.7
06: Boundary 1.7/1.8
07: Boundary 1.8/1.9
08: Boundary 1.9/1.10a
09: Boundary 1.10a/1.11
10: Boundary 1.11/1.13a
11: Boundary 1.13a/-
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
1.1c
ENST00000370083
1c
ENSE00001800716
chr1:
104198377-104198550
174
AMY1_HUMAN
-
0
0
-
-
1.3
ENST00000370083
3
ENSE00001618329
chr1:
104198907-104199120
214
AMY1_HUMAN
1-56
56
1
A:1-41
41
1.4b
ENST00000370083
4b
ENSE00002198690
chr1:
104199466-104199612
147
AMY1_HUMAN
57-105
49
1
A:42-90
49
1.5
ENST00000370083
5
ENSE00001722064
chr1:
104200416-104200613
198
AMY1_HUMAN
106-171
66
1
A:91-156
66
1.6b
ENST00000370083
6b
ENSE00002145789
chr1:
104201062-104201292
231
AMY1_HUMAN
172-248
77
1
A:157-233
77
1.7
ENST00000370083
7
ENSE00001650327
chr1:
104202032-104202165
134
AMY1_HUMAN
249-293
45
1
A:234-278
45
1.8
ENST00000370083
8
ENSE00001669527
chr1:
104202982-104203104
123
AMY1_HUMAN
293-334
42
1
A:278-314 (gaps)
42
1.9
ENST00000370083
9
ENSE00001786647
chr1:
104203199-104203298
100
AMY1_HUMAN
334-367
34
1
A:314-347
34
1.10a
ENST00000370083
10a
ENSE00001615366
chr1:
104205279-104205397
119
AMY1_HUMAN
368-407
40
1
A:348-387
40
1.11
ENST00000370083
11
ENSE00001680728
chr1:
104205508-104205633
126
AMY1_HUMAN
407-449
43
1
A:387-429
43
1.13a
ENST00000370083
13a
ENSE00001671242
chr1:
104206953-104207173
221
AMY1_HUMAN
449-511
63
1
A:429-491
63
[
close EXON info
]
SCOP Domains
(2, 2)
Info
All SCOP Domains
1a: SCOP_d1mfua1 (A:404-491)
2a: SCOP_d1mfua2 (A:1-403)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Glycosyl hydrolase domain
(397)
Superfamily
:
Glycosyl hydrolase domain
(397)
Family
:
alpha-Amylases, C-terminal beta-sheet domain
(272)
Protein domain
:
Animal alpha-amylase
(64)
Human (Homo sapiens) [TaxId: 9606]
(47)
1a
d1mfua1
A:404-491
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Amylase, catalytic domain
(385)
Protein domain
:
Animal alpha-amylase
(64)
Human (Homo sapiens) [TaxId: 9606]
(47)
2a
d1mfua2
A:1-403
[
close SCOP info
]
CATH Domains
(2, 2)
Info
all CATH domains
1a: CATH_1mfuA01 (A:2-398)
2a: CATH_1mfuA02 (A:399-491)
View:
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Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Human (Homo sapiens)
(94)
1a
1mfuA01
A:2-398
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Golgi alpha-mannosidase II
(346)
Human (Homo sapiens)
(76)
2a
1mfuA02
A:399-491
[
close CATH info
]
Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Alpha_amylase_C_1mfuA01 (A:401-490)
2a: PFAM_Alpha_amylase_1mfuA02 (A:21-331)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GHD
(106)
Family
:
Alpha-amylase_C
(82)
Homo sapiens (Human)
(31)
1a
Alpha-amylase_C-1mfuA01
A:401-490
Clan
:
Glyco_hydro_tim
(488)
Family
:
Alpha-amylase
(138)
Homo sapiens (Human)
(31)
2a
Alpha-amylase-1mfuA02
A:21-331
[
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]
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Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Asymmetric Unit 1
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