OLIGAMI : Oligomer Architecture and Molecular Interface

PDB ID : 4yed [A2]

Color

AR^a IR^b

Chain(OLIGAMI)
Chain(PDB)
Domain
CPK
Secondary Structure
Polar(blue)/
Nonpolar(white)

^a AR:All Residues
^b IR:Interface Residues

Style

Secondary Structure

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Chain

Chain name		Ribbon	Spacefill	Cαonly
OLIGAMI	PDB
A	A
B	B

Title

TCDA (CSDL)

Structure Summary

PDB ID	Mutant	OPM	Pub Med	Method/Resolution	HETNAM
4yed			26101842	X-RAY DIFFRACTION/1.9	AMP:ADENOSINE MONOPHOSPHATE GOL:GLYCEROL MSE:SELENOMETHIONINE

Chain Formula
Amino Acid sequence	SCOPe Family Level	CATH Homology Level
[A2]	[A2]	[A2]

Interfaces

Interface ID	Chain	Inaterface Class	Interface Type	Contact Type
4yed_AB	A B	HEN HEN	i16_CR(H18,E4,N22)_CE(H4,E2,N6)_HH(P1,S1)_HE(S1)_HN(L1,S5)_EN(S4) i16_CR(H18,E4,N22)_CE(H4,E2,N6)_HH(P1,S1)_HE(S1)_HN(L1,S5)_EN(S4)	c3_RP(HH36,NN33,HE3,HN33,NE2,EH3,NH32,EN3)_HH(P2,A2,S4)_HE(P1)_HN(L8,S8)_EN(S3) c3_RP(HH36,NN33,HE3,HN33,NE2,EH3,NH32,EN3)_HH(P2,A2,S4)_HE(P1)_HN(L8,S8)_EN(S3)

Interface Class

Interface ID	Interface 1						Interface 2
	Domain	Number of contact residues	Binding site Class	Percentages of Secondary structures(%)			Domain	Number of contact residues	Binding site Class	Percentages of Secondary structures(%)
	Domain	Number of contact residues	Binding site Class	H	E	N	Domain	Number of contact residues	Binding site Class	H	E	N
4yed_AB	A	52	HEN	44.2	100	51.9	B	51	HEN	43.1	9.8	47.1

Interface Type: Information for each interface

Interface ID	chain	Number of contact residues			Number of elements					Number of contacts between Secondary structure elements
		Number of contact residues			Number of elements					HH			EE						HE			HN		EN
		Hn	En	Nn	H	E	N	R	L	P	A	S	P	A	S	Ph	Ah	Ih	P	A	S	L	S	L	S
4yed_AB	A	23	52	27	5	1	6	0	0	2	0	3	0	0	0	0	0	0	0	0	1	1	8	0	1
4yed_AB	B	22	5	24	4	3	6	0	0	2	0	2	0	0	0	0	1	0	0	0	1	1	7	0	4

Contact Type: Information of contacts between interfaces

Interface ID	Number of residue pairs between SS elements									Number of contacts between Secondary structure elements
	H-H	E-E	N-N	H-E	H-N	N-E	E-H	N-H	E-N	H-H				E-E					H-E				H-N			E-N
	H-H	E-E	N-N	H-E	H-N	N-E	E-H	N-H	E-N	P	A	S	Ih	P	A	S	IPh	IAh	P	A	S	Ih	L	S	Ih	L	S	Ih
4yed_AB	20	0	5	0	53	2	6	48	3	0	2	3	0	0	0	0	0	0	0	1	1	0	13	1	9	0	3	0

Structual Classification

SCOPe

SCOPe ID	Chain	Class	Fold	Superfamily	Family	Protein Domain	Species
x43465	_	Not Classified	Not Classified 434	Not Classified 434	Not Classified 434	Not Classified 434	Not Classified 43465

CATH

CATH ID	Node	Class	Architecture	Topology	Homology
4yedA00	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
4yedB00	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
4yedC00	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain
4yedD00	3.40.50.720		:3-Layer(aba) Sandwich	:Rossmann fold	:NAD(P)-binding Rossmann-like Domain