ArchDB - Biological DataBase of Protein Loops

Information on SUBCLASS 5.4.1

Subclass Accession number: 8562
Subclass: 5.4.1

Type: HE alpha-beta
DB: ArchDB-EC

Image coordinates:

Consensus coordinates:

Number of loops: 20

Average sequence ID (%) : 14.1 +/- 14.8
Average RMSD (Å) : 0.930 +/- 0.329

Consensus geometry

d (Å): 17

delta (°): 90-135

theta (°): 135-180

rho (°): 180-225

Consensus Sequence:	XXcXXhpXh
(φψ)-conformation:	aalbppabb

Pattern:	[aiklmtv]	[cfiltvwy]	[adekqr]	x	x	[DEGKNS]	x	x	[filpvy]	[dehkqw]	x	[fgilvw]	x	x
Conservation:	-0.205	0.118	0.385	-0.652	-0.543	2.922	0.319	-0.298	-0.137	0.538	-0.800	-0.675	-0.972	-1.000

Loops included in this Subclass

Loop	PDB	Chain	Start	End	Sequence	Sec Struct	Ramachandran
1b7y_B_18	1b7y	B	24	37	RLAGLGFETDRIER	HHHHHT----EEEE	aaaaagbxxabbbx
1c7s_A_507	1c7s	A	523	536	MHKEAGQPIKTWHF	HHHHTT---S-EEE	aaaaavbppabbba
1dj3_A_410	1dj3	A	419	431	IEELAGVPVHYIG.	HHHHHSS---EEE.	aaaaagbxbabbx.
1eg7_A_1317	1eg7	A	1317	1330	KCRYAGFKPDATVI	HHHHHT----EEEE	aaaaavxbpabbbb
1fob_A_103	1fob	A	120	133	TFAENDIDIEIISI	HHHHTT---SEEEE	aaaaalbxbabbxx
1hw6_A_143	1hw6	A	149	162	IVAATGVVPAVNQI	HHHHHS---SEEEE	aaaaavbxxabbxb
1ig3_A_120	1ig3	A	131	144	KIEEKELQVDVIVT	HHHHTT---SEEEE	aaaaalxbbabbxb
1ihu_A_501	1ihu	A	513	526	DLERAGIHPWGWII	HHHHTT----EEEE	aaaaavbbpabbbx
1kkh_A_79	1kkh	A	88	101	TLDYLNIEPKTGFK	HHHHTT----S-EE	aaaaalbbwabxbb
1l5x_A_70	1l5x	A	77	90	ATFGLGRKYDIVLS	HHHHHTS--SEEEE	aaaaavbxxabbbb
1lh0_A_1043	1lh0	A	1056	1068	ALVDSGIEFDLLF.	HHHHH----SEEE.	aaaaavxxbabbb.
1mhm_A_96	1mhm	A	102	115	LAETLSLKVQDVRY	HHHHTT----EEEE	aaaaavbbxabbbb
1mzr_A_143	1mzr	A	149	162	LIDETGVTPVINQI	HHHHHS---SEEEE	aaaaavbxxabbxb
1ogs_A_204	1ogs	A	219	231	AYAEHKLQFWAVT.	HHHHTT---SEEE.	aaaaavbbbabbb.
1pie_A_101	1pie	A	110	123	MLKGAGYEIDKGFE	HHHHTT----S-EE	aaaaavxbxabxbb
1qhf_A_29	1qhf	A	41	54	LLKEKKVYPDVLYT	HHHHTT---SEEEE	aaaaalbbxabbbb
1qj5_A_112	1qj5	A	126	139	YWQAKGEARQRFLT	HHHHTT----EEEE	aaaaavbxbaxbbb
1qop_B_207	1qop	B	216	229	ILDKEGRLPDAVIA	HHHHHSS--SEEEE	aaaaavbxxabbbb
1vgv_A_44	1vgv	A	46	57	VLKLFSIVPDYD..	HHHHHT---SEE..	aaaaalxbpabb..
1zin_*_90	1zin	-	99	112	MLADIGRKLDYVIH	HHHHTT----EEEE	aaaaavbbxabbxx

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

Loop	PDB	Chain	Ligands	Residue
1dj3_A_410	1dj3	A	GDPGUANOSINE-5'-DIPHOSPHATE	I - 430
1dj3_A_410	1dj3	A	GDPGUANOSINE-5'-DIPHOSPHATE	G - 431
1hw6_A_143	1hw6	A	MGMAGNESIUM ION	E - 147
1ig3_A_120	1ig3	A	VIB3-(4-AMINO-2-METHYL-PYRIMIDIN-5-YLMETHYL)-5-(2-HYDROXY -ETHYL)-4-METHYL-THIAZOL-3-IUM	D - 120
1ig3_A_120	1ig3	A	VIB3-(4-AMINO-2-METHYL-PYRIMIDIN-5-YLMETHYL)-5-(2-HYDROXY -ETHYL)-4-METHYL-THIAZOL-3-IUM	K - 123
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	T - 501
1ihu_A_501	1ihu	A	MGMAGNESIUM ION	T - 502
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	T - 502
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	P - 503
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	N - 527
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	N - 528
1ihu_A_501	1ihu	A	ADPADENOSINE-5'-DIPHOSPHATE	S - 529
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	L - 76
1l5x_A_70	1l5x	A	GOLGLYCEROL	L - 76
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	A - 77
1l5x_A_70	1l5x	A	GOLGLYCEROL	A - 77
1l5x_A_70	1l5x	A	GOLGLYCEROL	T - 78
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	F - 79
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	G - 80
1l5x_A_70	1l5x	A	GOLGLYCEROL	G - 80
1l5x_A_70	1l5x	A	GOLGLYCEROL	L - 81
1l5x_A_70	1l5x	A	GOLGLYCEROL	Y - 85
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	D - 86
1l5x_A_70	1l5x	A	MSESELENOMETHIONINE	I - 92
1qhf_A_29	1qhf	A	3PG3-PHOSPHOGLYCERIC ACID	E - 34
1qj5_A_112	1qj5	A	PLPPYRIDOXAL-5'-PHOSPHATE	G - 112
1qj5_A_112	1qj5	A	PLPPYRIDOXAL-5'-PHOSPHATE	S - 113
1qj5_A_112	1qj5	A	PLPPYRIDOXAL-5'-PHOSPHATE	V - 114
1qj5_A_112	1qj5	A	PLPPYRIDOXAL-5'-PHOSPHATE	V - 116
1qop_B_207	1qop	B	PLPPYRIDOXAL-5'-PHOSPHATE	C - 230
1vgv_A_44	1vgv	A	MSESELENOMETHIONINE	D - 44
1vgv_A_44	1vgv	A	MSESELENOMETHIONINE	Q - 45
1vgv_A_44	1vgv	A	MSESELENOMETHIONINE	V - 46
1vgv_A_44	1vgv	A	MSESELENOMETHIONINE	I - 52
1zin_*_90	1zin	*	AP5BIS(ADENOSINE)-5'-PENTAPHOSPHATE	Q - 92

PDB Site Annotated loops in this subclass

Loop	PDB	Chain	Site	Residue
1ogs_A_204	1ogs	A	AC9SO4 BINDING SITE FOR CHAIN A	W - 228
1qop_B_207	1qop	B	PLPPLP BINDING SITE FOR CHAIN B	C - 230

Clusters included in this Subclass