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1VP6
Asym. Unit
Info
Asym.Unit (52 KB)
Biol.Unit 1 (48 KB)
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(1)
Title
:
M.LOTI ION CHANNEL CYLIC NUCLEOTIDE BINDING DOMAIN
Authors
:
G. M. Clayton, W. R. Silverman, L. Heginbotham, J. H. Morais-Cabral
Date
:
14 Oct 04 (Deposition) - 26 Oct 04 (Release) - 11 Nov 08 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,C
Biol. Unit 1: A,C (1x)
Keywords
:
Dimer Helical Bundle Beta Barrel Core With Cyclic Amp Bound, Membrane Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. M. Clayton, W. R. Silverman, L. Heginbotham, J. H. Morais-Cabral
Structural Basis Of Ligand Activation In A Cyclic Nucleotide Regulated Potassium Channel.
Cell(Cambridge, Mass. ) V. 119 615 2004
(for further references see the
PDB file header
)
[
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]
Hetero Components
(2, 18)
Info
All Hetero Components
1a: BROMIDE ION (BRa)
1b: BROMIDE ION (BRb)
1c: BROMIDE ION (BRc)
1d: BROMIDE ION (BRd)
1e: BROMIDE ION (BRe)
1f: BROMIDE ION (BRf)
1g: BROMIDE ION (BRg)
1h: BROMIDE ION (BRh)
1i: BROMIDE ION (BRi)
1j: BROMIDE ION (BRj)
1k: BROMIDE ION (BRk)
1l: BROMIDE ION (BRl)
1m: BROMIDE ION (BRm)
1n: BROMIDE ION (BRn)
1o: BROMIDE ION (BRo)
1p: BROMIDE ION (BRp)
2a: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHA... (CMPa)
2b: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHA... (CMPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BR
16
Ligand/Ion
BROMIDE ION
2
CMP
2
Ligand/Ion
ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE
[
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Sites
(16, 16)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:278
BINDING SITE FOR RESIDUE BR A 356
02
AC2
SOFTWARE
ARG A:252 , ARG A:271 , SER A:321 , HIS A:323 , HOH A:441
BINDING SITE FOR RESIDUE BR A 357
03
AC3
SOFTWARE
ARG A:307 , HOH A:379
BINDING SITE FOR RESIDUE BR A 358
04
AC4
SOFTWARE
HOH A:385
BINDING SITE FOR RESIDUE BR A 361
05
AC5
SOFTWARE
PRO A:234 , ARG A:264 , HOH A:456
BINDING SITE FOR RESIDUE BR A 362
06
AC6
SOFTWARE
ARG A:349
BINDING SITE FOR RESIDUE BR A 363
07
AC7
SOFTWARE
ALA A:231 , HOH A:432 , HOH A:451 , VAL C:224
BINDING SITE FOR RESIDUE BR A 364
08
AC8
SOFTWARE
GLY A:240 , ALA A:242 , VAL A:243
BINDING SITE FOR RESIDUE BR A 365
09
AC9
SOFTWARE
HOH A:439 , HOH C:420
BINDING SITE FOR RESIDUE BR A 366
10
BC1
SOFTWARE
ARG A:249
BINDING SITE FOR RESIDUE BR A 367
11
BC2
SOFTWARE
ARG C:252 , ARG C:271 , SER C:321 , HIS C:323
BINDING SITE FOR RESIDUE BR C 356
12
BC3
SOFTWARE
ARG C:252 , ARG C:254 , ARG C:271 , SER C:321
BINDING SITE FOR RESIDUE BR C 357
13
BC4
SOFTWARE
ILE C:262 , ARG C:307 , HOH C:416
BINDING SITE FOR RESIDUE BR C 358
14
BC5
SOFTWARE
ARG C:349
BINDING SITE FOR RESIDUE BR C 359
15
BC6
SOFTWARE
VAL A:282 , PHE A:296 , GLY A:297 , GLU A:298 , MET A:299 , ALA A:300 , ARG A:307 , SER A:308 , ALA A:309 , VAL A:311 , ARG A:348 , HOH A:375 , HOH A:411 , HOH A:431
BINDING SITE FOR RESIDUE CMP A 368
16
BC7
SOFTWARE
VAL C:282 , PHE C:296 , GLY C:297 , GLU C:298 , MET C:299 , ALA C:300 , ARG C:307 , SER C:308 , ALA C:309 , VAL C:311 , ARG C:348 , HOH C:363 , HOH C:446 , HOH C:468
BINDING SITE FOR RESIDUE CMP C 360
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 6)
Info
All PROSITE Patterns/Profiles
1: CNMP_BINDING_3 (A:235-348,C:235-348)
2: CNMP_BINDING_1 (A:262-278,C:262-278)
3: CNMP_BINDING_2 (A:296-313,C:296-313)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CNMP_BINDING_3
PS50042
cAMP/cGMP binding motif profile.
CNGK1_RHILO
235-348
2
A:235-348
C:235-348
2
CNMP_BINDING_1
PS00888
Cyclic nucleotide-binding domain signature 1.
CNGK1_RHILO
262-278
2
A:262-278
C:262-278
3
CNMP_BINDING_2
PS00889
Cyclic nucleotide-binding domain signature 2.
CNGK1_RHILO
296-313
2
A:296-313
C:296-313
[
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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, 2)
Info
All SCOP Domains
1a: SCOP_d1vp6a_ (A:)
1b: SCOP_d1vp6c_ (C:)
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)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Double-stranded beta-helix
(580)
Superfamily
:
cAMP-binding domain-like
(99)
Family
:
cAMP-binding domain
(78)
Protein domain
:
Putative ion channel CnbD
(2)
Mesorhizobium loti [TaxId: 381]
(2)
1a
d1vp6a_
A:
1b
d1vp6c_
C:
[
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1vp6A00 (A:218-350)
1b: CATH_1vp6C00 (C:218-350)
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Organisms
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)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Jelly Rolls
(1293)
Homologous Superfamily
:
Jelly Rolls
(177)
Mesorhizobium loti. Organism_taxid: 381.
(1)
1a
1vp6A00
A:218-350
1b
1vp6C00
C:218-350
[
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]
Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_cNMP_binding_1vp6C01 (C:253-336)
1b: PFAM_cNMP_binding_1vp6C02 (C:253-336)
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Clans
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(
)
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)
(
)
Clan
:
no clan defined [family: cNMP_binding]
(41)
Family
:
cNMP_binding
(41)
Rhizobium loti (Mesorhizobium loti)
(4)
1a
cNMP_binding-1vp6C01
C:253-336
1b
cNMP_binding-1vp6C02
C:253-336
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Chain A
Chain C
Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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show SS bonds with a radius of 100 units (=0.4Å)
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