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2AE7
Asym. Unit
Info
Asym.Unit (159 KB)
Biol.Unit 1 (53 KB)
Biol.Unit 2 (55 KB)
Biol.Unit 3 (53 KB)
Biol.Unit 4 (152 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN M340H-BETA1,4-GALACTOSYLTRANSFERASE-I (M340H-B4GAL-T1) IN COMPLEX WITH PENTASACCHARIDE
Authors
:
V. Ramasamy, B. Ramakrishnan, E. Boeggeman, D. M. Ratner, P. H. Seeberg P. K. Qasba
Date
:
21 Jul 05 (Deposition) - 04 Oct 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: A,B,C (1x)
Keywords
:
Beta1, 4-Galactosyltransferase-I; Pentasaccharide; Closed Conformation; Mutant, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Ramasamy, B. Ramakrishnan, E. Boeggeman, D. M. Ratner, P. H. Seeberger, P. K. Qasba
Oligosaccharide Preferences Of Beta1, 4-Galactosyltransferase-I: Crystal Structures Of Met340His Mutant Of Human Beta1, 4-Galactosyltransferase-I With A Pentasaccharide And Trisaccharides Of The N-Glycan Moiety
J. Mol. Biol. V. 353 53 2005
[
close entry info
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Hetero Components
(7, 35)
Info
All Hetero Components
1a: 1,4-DIETHYLENE DIOXIDE (DIOa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
4a: MANGANESE (II) ION (MNa)
4b: MANGANESE (II) ION (MNb)
4c: MANGANESE (II) ION (MNc)
5a: N-ACETYL-D-GLUCOSAMINE (NAGa)
5b: N-ACETYL-D-GLUCOSAMINE (NAGb)
5c: N-ACETYL-D-GLUCOSAMINE (NAGc)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
6h: SULFATE ION (SO4h)
6i: SULFATE ION (SO4i)
6j: SULFATE ION (SO4j)
6k: SULFATE ION (SO4k)
6l: SULFATE ION (SO4l)
6m: SULFATE ION (SO4m)
6n: SULFATE ION (SO4n)
7a: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSP... (UDHa)
7b: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSP... (UDHb)
7c: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSP... (UDHc)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DIO
1
Ligand/Ion
1,4-DIETHYLENE DIOXIDE
2
GOL
7
Ligand/Ion
GLYCEROL
3
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
4
MN
3
Ligand/Ion
MANGANESE (II) ION
5
NAG
3
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
6
SO4
14
Ligand/Ion
SULFATE ION
7
UDH
3
Ligand/Ion
6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSPHATE
[
close Hetero Component info
]
Sites
(35, 35)
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)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PHE A:276 , TYR A:282 , TYR A:285 , TRP A:310 , GLY A:311 , GLY A:312 , ASP A:314 , ASP A:315 , ARG A:355 , MAN A:406 , GOL A:415 , HOH A:605
BINDING SITE FOR RESIDUE NAG A 405
02
AC2
SOFTWARE
TYR A:282 , PHE A:356 , NAG A:405 , HOH A:605 , HOH A:873
BINDING SITE FOR RESIDUE MAN A 406
03
AC3
SOFTWARE
PHE B:276 , TYR B:282 , TYR B:285 , GLY B:311 , GLY B:312 , ASP B:314 , ASP B:315 , ARG B:355 , MAN B:408 , GOL B:412 , HOH B:582 , HOH B:815
BINDING SITE FOR RESIDUE NAG B 407
04
AC4
SOFTWARE
TYR B:282 , PHE B:356 , NAG B:407 , MAN B:409 , HOH B:582 , HOH B:882
BINDING SITE FOR RESIDUE MAN B 408
05
AC5
SOFTWARE
PRO B:281 , TYR B:282 , MAN B:408
BINDING SITE FOR RESIDUE MAN B 409
06
AC6
SOFTWARE
PHE C:276 , TYR C:282 , TYR C:285 , GLY C:312 , ASP C:314 , ASP C:315 , ARG C:355 , MAN C:411 , GOL C:416
BINDING SITE FOR RESIDUE NAG C 410
07
AC7
SOFTWARE
PHE C:356 , NAG C:410
BINDING SITE FOR RESIDUE MAN C 411
08
AC8
SOFTWARE
ASP A:250 , HIS A:340 , HIS A:343 , UDH A:399 , HOH A:482
BINDING SITE FOR RESIDUE MN A 400
09
AC9
SOFTWARE
ASP B:250 , HIS B:340 , HIS B:343 , UDH B:401 , HOH B:484
BINDING SITE FOR RESIDUE MN B 402
10
BC1
SOFTWARE
ASP C:250 , HIS C:340 , HIS C:343 , UDH C:403 , HOH C:560
BINDING SITE FOR RESIDUE MN C 404
11
BC2
SOFTWARE
GLU A:144 , PHE A:145 , ASN A:146 , ARG A:339 , ARG A:342
BINDING SITE FOR RESIDUE SO4 A 419
12
BC3
SOFTWARE
ASN A:160 , TYR A:167 , PRO A:169 , ARG A:170 , HOH A:524 , HOH A:659 , HOH A:681 , HOH A:866 , ARG C:342
BINDING SITE FOR RESIDUE SO4 A 420
13
BC4
SOFTWARE
ARG A:267
BINDING SITE FOR RESIDUE SO4 A 421
14
BC5
SOFTWARE
ARG B:267 , PRO B:331 , HOH B:684
BINDING SITE FOR RESIDUE SO4 B 422
15
BC6
SOFTWARE
ASN C:160 , TYR C:167 , PRO C:169 , ARG C:170 , HOH C:452 , HOH C:533 , HOH C:642
BINDING SITE FOR RESIDUE SO4 C 423
16
BC7
SOFTWARE
GLU B:144 , PHE B:145 , ASN B:146 , ARG B:339 , ARG B:342 , ARG C:170
BINDING SITE FOR RESIDUE SO4 B 424
17
BC8
SOFTWARE
ASN B:160 , TYR B:167 , PRO B:169 , ARG B:170 , HOH B:477 , HOH B:497 , HOH B:530 , HOH B:841
BINDING SITE FOR RESIDUE SO4 B 425
18
BC9
SOFTWARE
GLU C:144 , PHE C:145 , ASN C:146 , ARG C:339 , ARG C:342
BINDING SITE FOR RESIDUE SO4 C 426
19
CC1
SOFTWARE
HIS C:343 , SER C:344
BINDING SITE FOR RESIDUE SO4 C 427
20
CC2
SOFTWARE
HIS B:343 , SER B:344 , HOH B:667
BINDING SITE FOR RESIDUE SO4 B 428
21
CC3
SOFTWARE
HIS A:343 , SER A:344 , HOH A:713
BINDING SITE FOR RESIDUE SO4 A 429
22
CC4
SOFTWARE
ASP B:150 , LEU B:151 , GLU B:152 , LYS B:192 , HOH B:860
BINDING SITE FOR RESIDUE SO4 B 430
23
CC5
SOFTWARE
SER C:344 , ARG C:345 , UDH C:403
BINDING SITE FOR RESIDUE SO4 C 431
24
CC6
SOFTWARE
SER B:344 , ARG B:345
BINDING SITE FOR RESIDUE SO4 B 432
25
CC7
SOFTWARE
PRO A:183 , PHE A:184 , ARG A:185 , ARG A:187 , PHE A:222 , ASP A:248 , VAL A:249 , ASP A:250 , LYS A:275 , TRP A:310 , HIS A:340 , HIS A:343 , ARG A:345 , ASP A:346 , MN A:400 , GOL A:415 , HOH A:482 , HOH A:606 , HOH A:629 , HOH A:660
BINDING SITE FOR RESIDUE UDH A 399
26
CC8
SOFTWARE
PRO B:183 , PHE B:184 , ARG B:185 , ARG B:187 , PHE B:222 , ASP B:248 , VAL B:249 , ASP B:250 , LYS B:275 , TRP B:310 , HIS B:340 , HIS B:343 , ARG B:345 , ASP B:346 , ASN B:349 , PRO B:351 , MN B:402 , GOL B:412 , HOH B:465 , HOH B:466 , HOH B:484
BINDING SITE FOR RESIDUE UDH B 401
27
CC9
SOFTWARE
PRO C:183 , PHE C:184 , ARG C:185 , ARG C:187 , PHE C:222 , ASP C:248 , VAL C:249 , ASP C:250 , LYS C:275 , TRP C:310 , HIS C:340 , HIS C:343 , ARG C:345 , ASP C:346 , MN C:404 , GOL C:416 , SO4 C:431 , HOH C:560 , HOH C:708 , HOH C:830 , HOH C:890
BINDING SITE FOR RESIDUE UDH C 403
28
DC1
SOFTWARE
ASN C:306 , TRP C:308 , ARG C:358 , SER C:398
BINDING SITE FOR RESIDUE DIO C 433
29
DC2
SOFTWARE
ARG B:224 , TRP B:310 , GLY B:311 , GLU B:313 , ASP B:314 , UDH B:401 , NAG B:407 , HOH B:445 , HOH B:489
BINDING SITE FOR RESIDUE GOL B 412
30
DC3
SOFTWARE
PHE A:318 , MET A:326 , SER A:327 , ILE A:328 , PHE B:318 , ILE B:328 , HOH B:611 , HOH B:850
BINDING SITE FOR RESIDUE GOL B 413
31
DC4
SOFTWARE
SER A:368 , ASP A:369 , PHE B:184 , ARG B:185 , ASN B:186 , ASN B:215 , HOH B:529
BINDING SITE FOR RESIDUE GOL B 414
32
DC5
SOFTWARE
ARG A:224 , TRP A:310 , GLY A:311 , GLU A:313 , ASP A:314 , UDH A:399 , NAG A:405 , HOH A:540 , HOH A:652
BINDING SITE FOR RESIDUE GOL A 415
33
DC6
SOFTWARE
ARG C:224 , TRP C:310 , GLY C:311 , GLU C:313 , ASP C:314 , UDH C:403 , NAG C:410 , HOH C:829
BINDING SITE FOR RESIDUE GOL C 416
34
DC7
SOFTWARE
ASN B:306 , TRP B:308 , ARG B:358 , PRO B:397 , SER B:398 , HOH B:862
BINDING SITE FOR RESIDUE GOL B 417
35
DC8
SOFTWARE
MET B:147 , PRO B:148 , VAL B:149 , ASP B:150 , LEU B:153 , TYR B:196
BINDING SITE FOR RESIDUE GOL B 418
[
close Site info
]
SAPs(SNPs)/Variants
(1, 3)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_054020 (H257R, chain A/B/C, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_054020
H
257
R
B4GT1_HUMAN
Polymorphism
9169
A/B/C
H
257
R
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
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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
(6, 18)
Info
All Exons
Exon 1.1 (A:127-138 | B:127-138 | C:127-138)
Exon 1.2 (A:138-216 | B:138-216 | C:138-216)
Exon 1.3 (A:217-279 | B:217-279 | C:217-279)
Exon 1.4 (A:279-320 | B:279-320 | C:279-320)
Exon 1.5 (A:320-355 | B:320-355 | C:320-355)
Exon 1.6 (A:355-398 | B:355-398 | C:355-398)
View:
Select:
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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 1.4/1.5
6: Boundary 1.5/1.6
7: Boundary 1.6/-
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
ENST00000379731
1
ENSE00001482335
chr9:
33167354-33166756
599
B4GT1_HUMAN
1-138
138
3
A:127-138
B:127-138
C:127-138
12
12
12
1.2
ENST00000379731
2
ENSE00000695817
chr9:
33135422-33135187
236
B4GT1_HUMAN
138-216
79
3
A:138-216
B:138-216
C:138-216
79
79
79
1.3
ENST00000379731
3
ENSE00000695815
chr9:
33120604-33120417
188
B4GT1_HUMAN
217-279
63
3
A:217-279
B:217-279
C:217-279
63
63
63
1.4
ENST00000379731
4
ENSE00000695812
chr9:
33116111-33115989
123
B4GT1_HUMAN
279-320
42
3
A:279-320
B:279-320
C:279-320
42
42
42
1.5
ENST00000379731
5
ENSE00000695809
chr9:
33113876-33113772
105
B4GT1_HUMAN
320-355
36
3
A:320-355
B:320-355
C:320-355
36
36
36
1.6
ENST00000379731
6
ENSE00001482317
chr9:
33113584-33110635
2950
B4GT1_HUMAN
355-398
44
3
A:355-398
B:355-398
C:355-398
44
44
44
[
close EXON info
]
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d2ae7a_ (A:)
1b: SCOP_d2ae7b_ (B:)
1c: SCOP_d2ae7c_ (C:)
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Nucleotide-diphospho-sugar transferases
(408)
Superfamily
:
Nucleotide-diphospho-sugar transferases
(408)
Family
:
beta 1,4 galactosyltransferase (b4GalT1)
(39)
Protein domain
:
automated matches
(19)
Human (Homo sapiens) [TaxId: 9606]
(17)
1a
d2ae7a_
A:
1b
d2ae7b_
B:
1c
d2ae7c_
C:
[
close SCOP info
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_2ae7A00 (A:127-398)
1b: CATH_2ae7B00 (B:127-398)
1c: CATH_2ae7C00 (C:127-398)
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(
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Homologous Superfamily
:
Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
(231)
Human (Homo sapiens)
(73)
1a
2ae7A00
A:127-398
1b
2ae7B00
B:127-398
1c
2ae7C00
C:127-398
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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