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1T61
Asym. Unit
Info
Asym.Unit (231 KB)
Biol.Unit 1 (224 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF COLLAGEN IV NC1 DOMAIN FROM PLACENTA BASEMENT MEMBRANE
Authors
:
R. M. Vanacore, S. Shanmugasundararaj, D. B. Friedman, O. Bondar, B. G. M. Sundaramoorthy
Date
:
05 May 04 (Deposition) - 21 Sep 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Basement Membrane, Type Iv Collagen, Nc1 Domain, Structural Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
R. M. Vanacore, S. Shanmugasundararaj, D. B. Friedman, O. Bondar, B. G. Hudson, M. Sundaramoorthy
The Alpha1. Alpha2 Network Of Collagen Iv. Reinforced Stabilization Of The Noncollagenous Domain-1 By Noncovalent Forces And The Absence Of Met-Lys Cross-Links
J. Biol. Chem. V. 279 44723 2004
[
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Hetero Components
(4, 21)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
4a: POTASSIUM ION (Ka)
4b: POTASSIUM ION (Kb)
4c: POTASSIUM ION (Kc)
4d: POTASSIUM ION (Kd)
4e: POTASSIUM ION (Ke)
4f: POTASSIUM ION (Kf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
2
Ligand/Ion
CALCIUM ION
2
CL
6
Ligand/Ion
CHLORIDE ION
3
GOL
7
Ligand/Ion
GLYCEROL
4
K
6
Ligand/Ion
POTASSIUM ION
[
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Sites
(21, 21)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:189 , TYR C:63 , ASN C:65 , ALA E:186
BINDING SITE FOR RESIDUE K C 801
02
AC2
SOFTWARE
ALA A:186 , ASN D:66 , TYR E:189
BINDING SITE FOR RESIDUE K A 802
03
AC3
SOFTWARE
ALA B:186 , TYR D:189 , TYR F:63 , ASN F:65
BINDING SITE FOR RESIDUE K F 803
04
AC4
SOFTWARE
TYR C:183 , ALA C:184 , ASN E:66 , TYR F:187
BINDING SITE FOR RESIDUE K C 805
05
AC5
SOFTWARE
ASN B:66 , TYR C:187 , ALA F:184
BINDING SITE FOR RESIDUE K B 806
06
AC6
SOFTWARE
ASN A:66 , TYR B:189 , ALA D:186
BINDING SITE FOR RESIDUE K A 807
07
AC7
SOFTWARE
HOH A:875 , ALA D:74 , ARG D:76 , ASP D:78 , GLY D:178 , HOH D:830
BINDING SITE FOR RESIDUE CL D 804
08
AC8
SOFTWARE
ALA C:73 , SER C:74 , ARG C:75 , ASN C:76 , ASP C:77 , HOH C:832 , HOH C:834
BINDING SITE FOR RESIDUE CL C 808
09
AC9
SOFTWARE
ALA B:74 , ARG B:76 , ASP B:78 , GLY B:178 , ARG B:179 , HOH B:829
BINDING SITE FOR RESIDUE CL B 809
10
BC1
SOFTWARE
ALA A:74 , ARG A:76 , ASN A:77 , ASP A:78 , HOH A:835 , HOH D:857
BINDING SITE FOR RESIDUE CL A 810
11
BC2
SOFTWARE
ARG C:177 , ALA E:74 , ARG E:76 , ASP E:78 , GLY E:178 , HOH E:841
BINDING SITE FOR RESIDUE CL E 811
12
BC3
SOFTWARE
ALA F:73 , ARG F:75 , ASN F:76 , ASP F:77 , HOH F:833 , HOH F:834
BINDING SITE FOR RESIDUE CL F 812
13
BC4
SOFTWARE
HOH B:883 , ASP C:148 , ASP F:148 , GLU F:149 , HOH F:908 , HOH F:914
BINDING SITE FOR RESIDUE CA F 813
14
BC5
SOFTWARE
ASP C:148 , GLU C:149 , HOH C:923 , HOH E:890 , HOH F:914
BINDING SITE FOR RESIDUE CA C 814
15
BC6
SOFTWARE
TYR A:28 , CYS A:53 , ARG A:55 , VAL B:120 , HIS B:121 , HOH B:889
BINDING SITE FOR RESIDUE GOL A 811
16
BC7
SOFTWARE
TYR D:28 , ARG D:55 , VAL E:120 , HIS E:121 , GLN E:123 , HOH E:887
BINDING SITE FOR RESIDUE GOL E 812
17
BC8
SOFTWARE
LEU A:63 , PHE A:73 , ALA B:194 , THR B:195 , HIS B:218
BINDING SITE FOR RESIDUE GOL B 810
18
BC9
SOFTWARE
GLU A:87 , PRO A:88 , MET A:89 , TYR A:184 , HOH A:831
BINDING SITE FOR RESIDUE GOL A 812
19
CC1
SOFTWARE
MET A:89 , TYR A:184 , TYR A:185 , ALA A:186 , HOH A:916 , PRO C:66 , ASN D:66
BINDING SITE FOR RESIDUE GOL A 813
20
CC2
SOFTWARE
VAL A:120 , HIS A:121 , GLN A:123 , HOH A:887 , TRP C:27 , LEU C:53 , ALA C:54
BINDING SITE FOR RESIDUE GOL A 814
21
CC3
SOFTWARE
VAL D:120 , HIS D:121 , HOH D:845 , TRP F:27 , ALA F:54
BINDING SITE FOR RESIDUE GOL D 805
[
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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
(1, 3)
Info
All PROSITE Patterns/Profiles
1: NC1_IV (A:5-227,D:5-228,E:5-228)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
NC1_IV
PS51403
Collagen IV carboxyl-terminal non-collagenous (NC1) domain profile.
CO4A1_BOVIN
5-229
3
A:5-227
D:5-228
E:5-228
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1t61a1 (A:6-114)
1b: SCOP_d1t61a2 (A:115-225)
1c: SCOP_d1t61f1 (F:6-114)
1d: SCOP_d1t61f2 (F:115-225)
1e: SCOP_d1t61b1 (B:6-114)
1f: SCOP_d1t61b2 (B:115-225)
1g: SCOP_d1t61c1 (C:6-114)
1h: SCOP_d1t61c2 (C:115-225)
1i: SCOP_d1t61d1 (D:6-114)
1j: SCOP_d1t61d2 (D:115-225)
1k: SCOP_d1t61e1 (E:6-114)
1l: SCOP_d1t61e2 (E:115-225)
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
C-type lectin-like
(322)
Superfamily
:
C-type lectin-like
(322)
Family
:
Noncollagenous (NC1) domain of collagen IV
(4)
Protein domain
:
Noncollagenous (NC1) domain of collagen IV
(4)
Cow (Bos taurus) [TaxId: 9913]
(3)
1a
d1t61a1
A:6-114
1b
d1t61a2
A:115-225
1c
d1t61f1
F:6-114
1d
d1t61f2
F:115-225
1e
d1t61b1
B:6-114
1f
d1t61b2
B:115-225
1g
d1t61c1
C:6-114
1h
d1t61c2
C:115-225
1i
d1t61d1
D:6-114
1j
d1t61d2
D:115-225
1k
d1t61e1
E:6-114
1l
d1t61e2
E:115-225
[
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]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1t61D00 (D:5-228)
1b: CATH_1t61A00 (A:5-227)
1c: CATH_1t61B00 (B:6-228)
1d: CATH_1t61C00 (C:5-226)
1e: CATH_1t61F00 (F:5-226)
1f: CATH_1t61E00 (E:5-228)
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Architectures
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Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Complex
(381)
Topology
:
Noncollagenous (NC1) domain of collagen IV
(4)
Homologous Superfamily
:
Noncollagenous (NC1) domain of collagen IV
(4)
Cattle (Bos taurus)
(3)
1a
1t61D00
D:5-228
1b
1t61A00
A:5-227
1c
1t61B00
B:6-228
1d
1t61C00
C:5-226
1e
1t61F00
F:5-226
1f
1t61E00
E:5-228
[
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_C4_1t61F01 (F:112-226)
1b: PFAM_C4_1t61F02 (F:112-226)
1c: PFAM_C4_1t61F03 (F:112-226)
1d: PFAM_C4_1t61F04 (F:112-226)
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Clans
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Families
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)
(
)
Organisms
(
)
(
)
Clan
:
C_Lectin
(98)
Family
:
C4
(3)
Bos taurus (Bovine)
(2)
1a
C4-1t61F01
F:112-226
1b
C4-1t61F02
F:112-226
1c
C4-1t61F03
F:112-226
1d
C4-1t61F04
F:112-226
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