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3N85
Asym. Unit
Info
Asym.Unit (359 KB)
Biol.Unit 1, α-C (1.0 MB)
Biol.Unit 1 (1.0 MB)
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(1)
Title
:
CRYSTALLOGRAPHIC TRIMER OF HER2 EXTRACELLULAR REGIONS IN COMPLEX WITH TRYPTOPHAN-RICH ANTIBODY FRAGMENT
Authors
:
C. Eigenbrot
Date
:
27 May 10 (Deposition) - 28 Jul 10 (Release) - 15 Jan 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,H,L
Biol. Unit 1: A,H,L (3x)
Keywords
:
Her2, Erbb2, Trp/Ser Library, Phage Display, Transferase-Immune System Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. D. Fisher, M. Ultsch, A. Lingel, G. Schaefer, L. Shao, S. Birtalan, S. S. Sidhu, C. Eigenbrot
Structure Of The Complex Between Her2 And An Antibody Paratope Formed By Side Chains From Tryptophan And Serine.
J. Mol. Biol. V. 402 217 2010
[
close entry info
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Hetero Components
(5, 24)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: CHLORIDE ION (CLa)
3a: ALPHA-L-FUCOSE (FUCa)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
5k: SULFATE ION (SO4k)
5l: SULFATE ION (SO4l)
5m: SULFATE ION (SO4m)
5n: SULFATE ION (SO4n)
5o: SULFATE ION (SO4o)
5p: SULFATE ION (SO4p)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CL
1
Ligand/Ion
CHLORIDE ION
3
FUC
1
Ligand/Ion
ALPHA-L-FUCOSE
4
NAG
4
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
SO4
16
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(24, 24)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
THR A:45 , VAL A:69 , ARG A:70
BINDING SITE FOR RESIDUE CL A 625
02
AC2
SOFTWARE
PRO A:372 , PRO A:394 , ASP A:395 , SER A:396 , TRP H:96
BINDING SITE FOR RESIDUE SO4 A 626
03
AC3
SOFTWARE
HIS A:456 , HIS A:473 , THR A:474 , ALA A:475 , ASN A:476
BINDING SITE FOR RESIDUE SO4 A 627
04
AC4
SOFTWARE
LYS A:128 , GLN A:217 , GLU A:243 , LEU A:244
BINDING SITE FOR RESIDUE SO4 A 628
05
AC5
SOFTWARE
ALA A:15 , TYR A:389 , ASN A:416
BINDING SITE FOR RESIDUE SO4 A 629
06
AC6
SOFTWARE
ARG A:514 , ARG A:523 , SER H:82B
BINDING SITE FOR RESIDUE SO4 A 630
07
AC7
SOFTWARE
GLU A:373 , SER H:25 , GLY H:26 , PHE H:27 , ASN H:76
BINDING SITE FOR RESIDUE SO4 H 225
08
AC8
SOFTWARE
VAL A:575 , ALA A:576 , ARG A:577
BINDING SITE FOR RESIDUE SO4 A 631
09
AC9
SOFTWARE
SER L:30 , ARG L:66
BINDING SITE FOR RESIDUE SO4 L 218
10
BC1
SOFTWARE
LYS A:148 , ASN A:154 , GLY A:200
BINDING SITE FOR RESIDUE SO4 A 632
11
BC2
SOFTWARE
GLN A:462 , ARG A:495 , HIS A:497 , VAL A:507 , ASN A:508
BINDING SITE FOR RESIDUE SO4 A 633
12
BC3
SOFTWARE
PRO L:59 , SER L:60
BINDING SITE FOR RESIDUE SO4 L 219
13
BC4
SOFTWARE
ARG A:410 , ARG A:437 , GLU A:438
BINDING SITE FOR RESIDUE SO4 A 634
14
BC5
SOFTWARE
GLU A:485 , GLY A:486 , TRP H:56
BINDING SITE FOR RESIDUE SO4 A 635
15
BC6
SOFTWARE
MET A:9 , PRO A:14 , ALA A:15 , SER A:16 , HIS A:20 , MET A:23 , TYR A:419
BINDING SITE FOR RESIDUE SO4 A 636
16
BC7
SOFTWARE
HIS A:152 , LYS A:153
BINDING SITE FOR RESIDUE SO4 A 637
17
BC8
SOFTWARE
SER A:16 , GLU A:18 , HIS A:447 , HIS A:448 , THR A:474
BINDING SITE FOR RESIDUE SO4 A 638
18
BC9
SOFTWARE
GLN A:134 , ASP A:163 , ASN A:165 , ALA A:169 , CYS A:170 , PRO A:172 , NAG A:1166 , FUC A:1170
BINDING SITE FOR RESIDUE NAG A 1165
19
CC1
SOFTWARE
HIS A:171 , PRO A:172 , NAG A:1165 , BMA A:1167 , FUC A:1170
BINDING SITE FOR RESIDUE NAG A 1166
20
CC2
SOFTWARE
NAG A:1166
BINDING SITE FOR RESIDUE BMA A 1167
21
CC3
SOFTWARE
NAG A:1165 , NAG A:1166
BINDING SITE FOR RESIDUE FUC A 1170
22
CC4
SOFTWARE
CYS A:230 , ASN A:237 , SER A:239 , NAG A:1238
BINDING SITE FOR RESIDUE NAG A 1237
23
CC5
SOFTWARE
NAG A:1237 , BMA A:1239
BINDING SITE FOR RESIDUE NAG A 1238
24
CC6
SOFTWARE
NAG A:1238
BINDING SITE FOR RESIDUE BMA A 1239
[
close Site info
]
SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_016317 (W430C, chain A, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_016317
W
452
C
ERBB2_HUMAN
Polymorphism
4252633
A
W
430
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(16, 16)
Info
All Exons
Exon 1.4 (A:1-3)
Exon 1.5 (A:3-53)
Exon 1.6 (A:54-125 (gaps))
Exon 1.7 (A:125-170)
Exon 1.8 (A:170-193)
Exon 1.9 (A:193-231)
Exon 1.10 (A:232-279 (gaps))
Exon 1.11 (A:279-319)
Exon 1.12 (A:319-361)
Exon 1.13 (A:361-386)
Exon 1.14 (A:386-416)
Exon 1.15 (A:416-483)
Exon 1.16 (A:483-527)
Exon 1.17 (A:527-557)
Exon 1.18 (A:558-611)
Exon 1.19 (A:611-620)
View:
Select:
Label:
All Exon Boundaries
01: Boundary -/1.4
02: Boundary 1.4/1.5
03: Boundary 1.5/1.6
04: Boundary 1.6/1.7
05: Boundary 1.7/1.8
06: Boundary 1.8/1.9
07: Boundary 1.9/1.10
08: Boundary 1.10/1.11
09: Boundary 1.11/1.12
10: Boundary 1.12/1.13
11: Boundary 1.13/1.14
12: Boundary 1.14/1.15
13: Boundary 1.15/1.16
14: Boundary 1.16/1.17
15: Boundary 1.17/1.18
16: Boundary 1.18/1.19
17: Boundary 1.19/1.20
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
1.4
ENST00000269571
4
ENSE00001234770
chr17:
37856254-37856564
311
ERBB2_HUMAN
1-25
25
1
A:1-3
3
1.5
ENST00000269571
5
ENSE00001673952
chr17:
37863243-37863394
152
ERBB2_HUMAN
25-75
51
1
A:3-53
51
1.6
ENST00000269571
6
ENSE00000950603
chr17:
37864574-37864787
214
ERBB2_HUMAN
76-147
72
1
A:54-125 (gaps)
72
1.7
ENST00000269571
7
ENSE00001200960
chr17:
37865571-37865705
135
ERBB2_HUMAN
147-192
46
1
A:125-170
46
1.8
ENST00000269571
8
ENSE00001200956
chr17:
37866066-37866134
69
ERBB2_HUMAN
192-215
24
1
A:170-193
24
1.9
ENST00000269571
9
ENSE00001200949
chr17:
37866339-37866454
116
ERBB2_HUMAN
215-253
39
1
A:193-231
39
1.10
ENST00000269571
10
ENSE00000950607
chr17:
37866593-37866734
142
ERBB2_HUMAN
254-301
48
1
A:232-279 (gaps)
48
1.11
ENST00000269571
11
ENSE00001200943
chr17:
37868181-37868300
120
ERBB2_HUMAN
301-341
41
1
A:279-319
41
1.12
ENST00000269571
12
ENSE00001200937
chr17:
37868575-37868701
127
ERBB2_HUMAN
341-383
43
1
A:319-361
43
1.13
ENST00000269571
13
ENSE00001121108
chr17:
37871539-37871612
74
ERBB2_HUMAN
383-408
26
1
A:361-386
26
1.14
ENST00000269571
14
ENSE00001121103
chr17:
37871699-37871789
91
ERBB2_HUMAN
408-438
31
1
A:386-416
31
1.15
ENST00000269571
15
ENSE00001121098
chr17:
37871993-37872192
200
ERBB2_HUMAN
438-505
68
1
A:416-483
68
1.16
ENST00000269571
16
ENSE00001121093
chr17:
37872554-37872686
133
ERBB2_HUMAN
505-549
45
1
A:483-527
45
1.17
ENST00000269571
17
ENSE00001121088
chr17:
37872768-37872858
91
ERBB2_HUMAN
549-579
31
1
A:527-557
31
1.18
ENST00000269571
18
ENSE00000950615
chr17:
37873573-37873733
161
ERBB2_HUMAN
580-633
54
1
A:558-611
54
1.19
ENST00000269571
19
ENSE00001121079
chr17:
37876040-37876087
48
ERBB2_HUMAN
633-649
17
1
A:611-620
10
1.20
ENST00000269571
20
ENSE00001121070
chr17:
37879572-37879710
139
ERBB2_HUMAN
649-695
47
0
-
-
1.21
ENST00000269571
21
ENSE00000950618
chr17:
37879791-37879913
123
ERBB2_HUMAN
696-736
41
0
-
-
1.22
ENST00000269571
22
ENSE00000950619
chr17:
37880165-37880263
99
ERBB2_HUMAN
737-769
33
0
-
-
1.23
ENST00000269571
23
ENSE00000950620
chr17:
37880979-37881164
186
ERBB2_HUMAN
770-831
62
0
-
-
1.24
ENST00000269571
24
ENSE00000950621
chr17:
37881302-37881457
156
ERBB2_HUMAN
832-883
52
0
-
-
1.25
ENST00000269571
25
ENSE00001717073
chr17:
37881580-37881655
76
ERBB2_HUMAN
884-909
26
0
-
-
1.26
ENST00000269571
26
ENSE00000950623
chr17:
37881960-37882106
147
ERBB2_HUMAN
909-958
50
0
-
-
1.27
ENST00000269571
27
ENSE00000950624
chr17:
37882815-37882912
98
ERBB2_HUMAN
958-990
33
0
-
-
1.28
ENST00000269571
28
ENSE00000950625
chr17:
37883068-37883256
189
ERBB2_HUMAN
991-1053
63
0
-
-
1.29
ENST00000269571
29
ENSE00000950626
chr17:
37883548-37883800
253
ERBB2_HUMAN
1054-1138
85
0
-
-
1.30
ENST00000269571
30
ENSE00001384235
chr17:
37883942-37884915
974
ERBB2_HUMAN
1138-1255
118
0
-
-
[
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]
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(2, 3)
Info
all PFAM domains
1a: PFAM_Furin_like_3n85A01 (A:161-321)
2a: PFAM_Recep_L_domain_3n85A02 (A:344-464)
2b: PFAM_Recep_L_domain_3n85A03 (A:344-464)
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Clans
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(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Furin-like]
(12)
Family
:
Furin-like
(12)
Homo sapiens (Human)
(9)
1a
Furin-like-3n85A01
A:161-321
Clan
:
no clan defined [family: Recep_L_domain]
(12)
Family
:
Recep_L_domain
(12)
Homo sapiens (Human)
(9)
2a
Recep_L_domain-3n85A02
A:344-464
2b
Recep_L_domain-3n85A03
A:344-464
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Asym.Unit (359 KB)
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