ArchDB - Biological DataBase of Protein Loops

Information on SUBCLASS 6.2.1

Subclass Accession number: 44
Subclass: 6.2.1
Type: EH beta-alpha
DB: ArchDB-KI

Number of loops: 10

Average sequence ID (%) : 35.2 +/- 1.7
Average RMSD (Å) : 0.52 +/- 0.13

Consensus geometry

d (Å): 9

delta (°): 45-90

theta (°): 135-180

rho (°): 0-45

Consensus Sequence:	hXGXXhhGKp
(φψ)-conformation:	bbeppgagaa

Pattern:	[ILVY]	{AFILVW}	[ILM]	x	[G]	x	x	{AGV}	{ACV}	[G]	[KM]	{RST}	{ET}	{FLTV}	{AGV}	{EKQRS}	{EFKL}	[ILV]	x	{EHKQR}
Conservation:	0.362	-0.823	0.611	-0.718	2.398	-0.862	-0.999	-0.381	-0.333	2.398	0.893	-0.112	0.409	-0.716	-0.205	-0.670	-0.749	0.713	-0.667	-0.550

Loops included in this Subclass

Loop	PDB	Chain	Start	End	Sequence	Sec Struct	Ramachandran
1d6j_B_26	1d6j	B	28	47	IWLTGLSASGKSTLAVELEH	EEEES-TTSSHHHHHHHHHH	bbxbepaaavaaaaaaaaaa
1e4y_A_2	1e4y	A	3	22	IILLGALVAGKGTQAQFIME	EEEEESTTSSHHHHHHHHHH	bbbbexpvagaaaaaaaaaa
1e6c_A_5	1e6c	A	5	24	IFMVGARGCGMTTVGRELAR	EEEES-TTSSHHHHHHHHHH	bxbbexxvavaaaaaaaaaa
1e9e_A_8	1e9e	A	9	28	IVLEGVDRAGKSTQSRKLVE	EEEE-STTSSHHHHHHHHHH	bbbbexxvagaaaaaaaaaa
1esm_D_89	1esm	D	91	110	ISIAGSVAVGKSTTARVLQA	EEEEE-TTS-HHHHHHHHHH	bbbbepxvavaaaaaaaaaa
1g3u_A_2	1g3u	A	3	22	IAIEGVDGAGKRTLVEKLSG	EEEE-STTSSHHHHHHHHHH	bbxbexxvagaaaaaaaaaa
1jag_A_39	1jag	A	41	60	LSIEGNIAVGKSTFVKLLTK	EEEEE-TTSSHHHHHHHHHH	bbxbexpvagaaaaaaaaaa
1jb1_A_149	1jb1	A	151	170	VLITGDSGVGKSETALELVQ	EEEE-STTSSHHHHHHHHHH	bbxbeppvagaaaaaaaaaa
1kkm_A_149	1kkm	A	151	170	VLITGDSGVGKSETALELVQ	EEEE--TTS-HHHHHHHHHH	bbxbeppgagaaaaaaaaaa
1knq_A_9	1knq	A	11	30	YVLMGVSGSGKSAVASEVAH	EEEE-STTS-HHHHHHHHHH	bxxbexpgavaaaaaaaaaa

PDB ligands within a cut-off distance of 6 Å in this subclass

Loop	PDB	Chain	Ligands	Residue
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	G - 7
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	A - 8
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	L - 9
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	V - 10
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	A - 11
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	G - 12
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	K - 13
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	G - 14
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	T - 15
1e4y_A_2	1e4y	A	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	Q - 16

PDB Site Annotated loops in this subclass

Loop	PDB	Chain	Site	Residue
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	A - 8
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	L - 9
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	A - 11
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	G - 12
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	K - 13
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	G - 14
1e4y_A_2	1e4y	A	AC1AP5 BINDING SITE FOR CHAIN A	T - 15
1e6c_A_5	1e6c	A	POACHAIN A WALKER TYPE A MOTIF FORMING THE P-LOOP WHICH IS THE BINDING SITE FOR THE PHOSPHATES OF ATP.	G - 9
1e6c_A_5	1e6c	A	POACHAIN A WALKER TYPE A MOTIF FORMING THE P-LOOP WHICH IS THE BINDING SITE FOR THE PHOSPHATES OF ATP.	G - 14
1e6c_A_5	1e6c	A	POACHAIN A WALKER TYPE A MOTIF FORMING THE P-LOOP WHICH IS THE BINDING SITE FOR THE PHOSPHATES OF ATP.	M - 15
1e6c_A_5	1e6c	A	POACHAIN A WALKER TYPE A MOTIF FORMING THE P-LOOP WHICH IS THE BINDING SITE FOR THE PHOSPHATES OF ATP.	T - 16
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	R - 16
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	A - 17
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	G - 18
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	K - 19
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	S - 20
1e9e_A_8	1e9e	A	ADPADP BINDING SITE	T - 21

Bibliographic annotations

Loop	PDB	Chain	Annotation	Residue
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP	G - 32
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP MOTIF	G - 32
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP MOTIF	A - 35
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP	S - 36
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP MOTIF	G - 37
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP	K - 38
1d6j_B_26	1d6j RefI.J.MACRAE,I.H.SEGEL,A.J.FISHER. CRYSTAL STRUCTURE OF ADENOSINE 5'-PHOSPHOSULFATE KINASE FROM PENICILLIUM CHRYSOGENUM BIOCHEMISTRY v.39;1613,2000	B	P-LOOP MOTIF	S - 39
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	A - 98
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	A - 98
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	G - 100
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	K - 101
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	S - 102
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	T - 103
1esm_D_89	1esm RefM.YUN,C.G.PARK,J.Y.KIM,C.O.ROCK,S.JACKOWSKI,H.W.PARK. STRUCTURAL BASIS FOR THE FEEDBACK REGULATION OF ESCHERICHIA COLI PANTOTHENATE KINASE BY COENZYME A J.BIOL.CHEM. v.275;28093,2000	D	ATP BINDING RESIDUE	T - 104
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	P-LOOP MOTIF	G - 15
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	P-LOOP MOTIF	G - 18
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	GLUCONATE BINDING RESIDUE	K - 21
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	P-LOOP MOTIF	K - 21
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	GLUCONATE BINDING RESIDUE	S - 22
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	P-LOOP MOTIF	A - 23
1knq_A_9	1knq RefL.KRAFT,G.A.SPRENGER,Y.LINDQVIST. CONFORMATIONAL CHANGES DURING THE CATALYTIC CYCLE OF GLUCONATE KINASE AS REVEALED BY X-RAY CRYSTALLOGRAPHY J.MOL.BIOL. v.318;1057,2002	A	P-LOOP MOTIF	A - 23

Clusters included in this Subclass

CLUSTER: EH.5.4

CLUSTER: EH.6.3