ArchDB - Biological DataBase of Protein Loops

Information on SUBCLASS 2.2.4

Subclass Accession number: 124
Subclass: 2.2.4

Type: HE alpha-beta
DB: ArchDB40

Image coordinates:

Consensus coordinates:

Number of loops: 25

Average sequence ID (%) : 17.6 +/- 16.8
Average RMSD (Å) : 0.608 +/- 0.258

Consensus geometry

d (Å): 9

delta (°): 90-135

theta (°): 90-135

rho (°): 135-180

Consensus Sequence:	XXGhph
(φψ)-conformation:	aagpbp

Pattern:	x	x	x	[acfilmvwy]	[aegkqr]	[adegkqrs]	x	[GKS]	[acfgilmvwy]	[aeknrst]	[ilptv]	x
Conservation:	-0.575	-0.293	-0.539	-0.300	0.035	-0.203	-0.423	3.125	-0.285	-0.042	-0.185	-0.315

Loops included in this Subclass

Loop	PDB	Chain	Start	End	Sequence	Sec Struct	Ramachandran
1b33_N_33	1b33	N	40	51	QQRIQKMGGKIV	HHHHHHTT-EEE	aaaaaaavxbxa
1cb6_A_1396	1cb6	A	1399	1410	VYTAGKCGLVPV	HHHHHHTT-EEE	aaaaaaavxbxa
1cjx_A_27	1cjx	A	27	38	EPIFEIMGFTKV	HHHHHHTT-EEE	aaaaaaavxbxa
1dcp_A_10	1dcp	A	17	27	LPNLRAVGWNE.	HHHHHHHT-EE.	aaaaaaagxbx.
1drk_*_136	1drk	-	146	157	QQAVAAHKFNVL	HHHHHHHT-EEE	aaaaaaalxxxa
1f1u_A_163	1f1u	A	167	178	RAYLEDLGFRVS	HHHHHHTT-EEE	aaaaaaagxbxa
1gx1_A_73	1gx1	A	81	92	WRRIQAKGYTLG	HHHHHHTT-EEE	aaaaaaavxbxa
1hlw_A_25	1hlw	A	29	40	IARYEKKGFVLV	HHHHHHHT-EEE	aaaaaaagxbxa
1iv3_A_73	1iv3	A	81	92	MRLVEARGAKLL	HHHHHHTT--EE	aaaaaaavxbpa
1js3_A_219	1js3	A	226	237	LERDKAAGLIPF	HHHHHHTT-EEE	aaaaaaavxbxa
1k47_A_306	1k47	A	313	324	KNRWADLGIELL	HHHHHHTT-EEE	aaaaaaavxxxa
1lh0_A_1132	1lh0	A	1137	1148	MEIIQAHGATLA	HHHHHHTT-EEE	aaaaaaavxbxa
1m1n_B_373	1m1n	B	380	391	VKFLLELGCEPV	HHHHHHTT-EEE	aaaaaaavxbwa
1m2x_A_125	1m2x	A	125	136	LEYFGKIGAKTY	HHHHHHTT-EEE	aaaaaaavxbOb
1n71_A_144	1n71	A	144	155	YEFYEKLGYKIV	HHHHHHTT-EEE	aaaaaaavxbxa
1nm2_A_145	1nm2	A	149	160	VAHLERLGLTPA	HHHHHHTT-EEE	aaaaaaagxbxa
1nri_A_42	1nri	A	61	72	IVQAFQQGGRLI	HHHHHHTT--EE	aaaaaaavxbbb
1p0h_A_288	1p0h	A	291	302	VRTYQSLGFTTY	HHHHHHTT-EEE	aaaaaaavxbxa
1qip_A_41	1qip	A	46	57	DFYTRVLGMTLI	HHHHHTT--EEE	aaaaaaavxbxa
1qo3_C_160	1qo3	C	164	174	KQTCQSSSLSL.	HHHHHHTT-EE.	aaaaaaavbbp.
1ufk_A_224	1ufk	A	228	239	REAMAGAGFRPL	HHHHHHTT-EEE	aaaaaaavxbwa
1ukf_A_153	1ukf	A	159	169	TAVIEDAGFSL.	HHHHHHTT-EE.	aaaaaaavxbx.
1uv7_A_122	1uv7	A	130	141	AYLQERQGVSVD	HHHHHHS--EEE	aaaaaaavbxxa
1vhs_A_125	1vhs	A	128	139	LKLFEKHGFAEW	HHHHHHTT-EEE	aaaaaaavxbxa
1vio_A_185	1vio	A	187	198	KRMFAALGNKVV	HHHHHHTT--EE	aaaaaaavbbxa

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

Loop	PDB	Chain	Ligands	Residue
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	Y - 33
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	E - 34
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	W - 36
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	F - 37
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	Q - 40
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	Q - 41
1b33_N_33	1b33	N	CYCPHYCOCYANOBILIN	Q - 44
1drk_*_136	1drk	*	RIPRIBOSE(PYRANOSE FORM)	A - 137
1drk_*_136	1drk	*	RIPRIBOSE(PYRANOSE FORM)	A - 138
1drk_*_136	1drk	*	RIPRIBOSE(PYRANOSE FORM)	R - 141
1gx1_A_73	1gx1	A	MSESELENOMETHIONINE	G - 92
1gx1_A_73	1gx1	A	MSESELENOMETHIONINE	N - 93
1gx1_A_73	1gx1	A	MSESELENOMETHIONINE	I - 98
1gx1_A_73	1gx1	A	CDFCYTIDINE-5'-DIPHOSPHATE	I - 98
1gx1_A_73	1gx1	A	CDFCYTIDINE-5'-DIPHOSPHATE	I - 99
1js3_A_219	1js3	A	PLPPYRIDOXAL-5'-PHOSPHATE	T - 242
1lh0_A_1132	1lh0	A	OROOROTIC ACID	L - 1154
1n71_A_144	1n71	A	COACOENZYME A	Y - 144
1n71_A_144	1n71	A	COACOENZYME A	E - 145
1n71_A_144	1n71	A	COACOENZYME A	F - 146
1n71_A_144	1n71	A	COACOENZYME A	Y - 147
1n71_A_144	1n71	A	COACOENZYME A	K - 149
1n71_A_144	1n71	A	COACOENZYME A	L - 150
1nri_A_42	1nri	A	MSESELENOMETHIONINE	V - 43
1nri_A_42	1nri	A	MSESELENOMETHIONINE	P - 44
1nri_A_42	1nri	A	MSESELENOMETHIONINE	I - 47
1nri_A_42	1nri	A	MSESELENOMETHIONINE	L - 51
1nri_A_42	1nri	A	MSESELENOMETHIONINE	I - 54
1nri_A_42	1nri	A	MSESELENOMETHIONINE	V - 58
1nri_A_42	1nri	A	MSESELENOMETHIONINE	V - 62
1nri_A_42	1nri	A	MSESELENOMETHIONINE	F - 65
1nri_A_42	1nri	A	MSESELENOMETHIONINE	G - 69
1nri_A_42	1nri	A	MSESELENOMETHIONINE	R - 70
1nri_A_42	1nri	A	MSESELENOMETHIONINE	L - 71
1nri_A_42	1nri	A	MSESELENOMETHIONINE	I - 72
1p0h_A_288	1p0h	A	COACOENZYME A	V - 288
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	V - 288
1p0h_A_288	1p0h	A	COACOENZYME A	A - 289
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	A - 289
1p0h_A_288	1p0h	A	COACOENZYME A	A - 290
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	A - 290
1p0h_A_288	1p0h	A	COACOENZYME A	R - 292
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	R - 292
1p0h_A_288	1p0h	A	COACOENZYME A	T - 293
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	T - 293
1p0h_A_288	1p0h	A	COACOENZYME A	Y - 294
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	Y - 294
1p0h_A_288	1p0h	A	COACOENZYME A	S - 296
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	S - 296
1p0h_A_288	1p0h	A	ACOACETYL COENZYME *A	Y - 308
1qip_A_41	1qip	A	GNBS-P-NITROBENZYLOXYCARBONYLGLUTATHIONE	Q - 58
1qip_A_41	1qip	A	SEO2-MERCAPTOETHANOL	Q - 58
1qip_A_41	1qip	A	GNBS-P-NITROBENZYLOXYCARBONYLGLUTATHIONE	K - 59
1qip_A_41	1qip	A	SEO2-MERCAPTOETHANOL	K - 59
1qip_A_41	1qip	A	GNBS-P-NITROBENZYLOXYCARBONYLGLUTATHIONE	C - 60
1qip_A_41	1qip	A	SEO2-MERCAPTOETHANOL	C - 60
1qip_A_41	1qip	A	SEO2-MERCAPTOETHANOL	D - 61
1qip_A_41	1qip	A	GNBS-P-NITROBENZYLOXYCARBONYLGLUTATHIONE	F - 62
1qip_A_41	1qip	A	SEO2-MERCAPTOETHANOL	F - 62
1uv7_A_122	1uv7	A	MSESELENOMETHIONINE	D - 141
1vhs_A_125	1vhs	A	MSESELENOMETHIONINE	K - 125
1vhs_A_125	1vhs	A	MSESELENOMETHIONINE	P - 126
1vhs_A_125	1vhs	A	MSESELENOMETHIONINE	F - 136
1vhs_A_125	1vhs	A	MSESELENOMETHIONINE	W - 139
1vhs_A_125	1vhs	A	MSESELENOMETHIONINE	A - 146
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	Q - 185
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	V - 186
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	K - 187
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	V - 197
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	V - 198
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	G - 199
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	L - 200
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	H - 201
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	R - 202
1vio_A_185	1vio	A	BU11,4-BUTANEDIOL	W - 203

PDB Site Annotated loops in this subclass

Loop	PDB	Chain	Site	Residue
1qip_A_41	1qip	A	HD2HYDROPHOBIC SUBSTRATE BINDING POCKET AT DIMER INTERFACE.	C - 60
1qip_A_41	1qip	A	HD2HYDROPHOBIC SUBSTRATE BINDING POCKET AT DIMER INTERFACE.	F - 62

Clusters included in this Subclass