ArchDB - Biological DataBase of Protein Loops

Information on SUBCLASS 5.4.1

Subclass Accession number: 3997
Subclass: 5.4.1

Type: AR beta-beta link
DB: ArchDB95

Image coordinates:

Consensus coordinates:

Number of loops: 27

Average sequence ID (%) : 18.1 +/- 20.2
Average RMSD (Å) : 0.574 +/- 0.392

Consensus geometry

d (Å): 11

delta (°): 45-90

theta (°): 90-135

rho (°): 135-180

Consensus Sequence:	pXXhXppXh
(φψ)-conformation:	bbpaappbb

Pattern:	[adknqrst]	x	x	[ckq]	[aegnrst]	[degknqrst]	[adegknqrst]	x	x	[afpvwy]
Conservation:	-0.091	-0.178	-0.481	2.803	-0.308	-0.425	-0.113	-0.616	-0.416	-0.175

Loops included in this Subclass

Loop	PDB	Chain	Start	End	Sequence	Sec Struct	Ramachandran
1byf_A_105	1byf	A	108	117	DVGCGGARRV	EE-S-S-EEE	xbxaaxxbxb
1c3a_A_117	1c3a	A	118	127	NVYCGTENPE	EE-TTS-EEE	xbxaapxbxb
1e87_A_180	1e87	A	183	192	SMECEKNLYW	EE-TTS-BEE	bbpaaxxbxb
1fvu_A_115	1fvu	A	117	126	NLYCAQKNPF	EE-TT--EEE	xbxaaxbbwb
1g1s_A_104	1g1s	A	106	115	DEHCLKKKHA	EE-TTS-EEE	xbxaaxxbxx
1giq_A_154	1giq	A	159	168	KLPKNTGMLP	EE-TT-B-EE	xxpaaxxbbw
1gz2_A_125	1gz2	A	127	136	ARPCTERNAF	EE-TT--EEE	xbxaaxxbxb
1h8u_A_102	1h8u	A	104	113	RAHCLRRLPF	EE-TTS-EEE	xbxaaxbbwb
1hq8_A_213	1hq8	A	216	225	TEDCANLNTY	EE-TTS-EEE	xbxaaxxbxb
1hup_*_211	1hup	-	213	222	DVPCSTSHLA	EE-TTSEEEE	xbxaaxbbxx
1i7a_A_54	1i7a	A	60	69	TITPNMTFTK	EE-TT--EEE	xxbaaxbbbx
1ile_*_240	1ile	-	241	250	AVHPEYTYAA	EE-TTS-EEE	bbxaaxbxxb
1iod_A_115	1iod	A	116	125	NFYCEQQDPF	EE-TTS-EEE	xbxaaxbbwb
1ixx_A_115	1ixx	A	116	125	NIYCGQQNPF	EE-TT--EEE	xbxaaxbbwb
1j34_A_115	1j34	A	116	125	NIYCGQQNPF	EE-TTS-EEE	xbxaaxxbwb
1jwi_A_112	1jwi	A	114	123	DLPCGEKNPF	EE-TTS-EEE	xbxaaxxbwb
1jzn_A_118	1jzn	A	120	129	DQVCESKDAF	EE-TTS-EEE	xbxaaxxbxb
1oz7_B_105	1oz7	B	108	117	RRDCTWTFSF	EE-TTS-EEE	bbpaaxbbxb
1qdd_A_127	1qdd	A	129	138	DVPCEDKFSF	EE-TTS-EEE	xbxaaxbbxb
1r13_A_213	1r13	A	215	224	DRGCLQYRLA	EE-S-S-EEE	xbxaaxbbxx
1tdt_A_207	1tdt	A	207	216	YLGQSTRIYD	EE-TT--EEE	bbbaaxxbxx
1tn3_*_162	1tn3	-	165	174	DKRCRDQLPY	EE-TTS-EEE	xbxaaxbbwb
1ukm_A_116	1ukm	A	118	127	NINCEDLYPF	EE-TTS-EEE	xbxaaxbbwb
1umr_A_117	1umr	A	118	127	VASCIGKIPF	EE-TT--EEE	xbpaaxbbwb
1uv0_A_132	1uv0	A	134	143	DYNCNVRLPY	EE-TTS-EEE	xbpaaxxbwb
1vio_A_40	1vio	A	40	49	QISQEDEIYF	EE-TTS-EEE	xbbaaxbbbb
1vj0_A_140	1vj0	A	142	151	VLDPETDVLK	EE-TT--EEE	bxxaapxbbx

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

Loop	PDB	Chain	Ligands	Residue
1byf_A_105	1byf	A	OC6CALCIUM ION, 6 WATERS COORDINATED	L - 105
1byf_A_105	1byf	A	CACALCIUM ION	D - 107
1byf_A_105	1byf	A	ACTACETATE ION	D - 107
1byf_A_105	1byf	A	GOLGLYCEROL	D - 107
1byf_A_105	1byf	A	CACALCIUM ION	D - 108
1byf_A_105	1byf	A	GOLGLYCEROL	D - 108
1byf_A_105	1byf	A	CACALCIUM ION	V - 109
1byf_A_105	1byf	A	ACTACETATE ION	V - 109
1byf_A_105	1byf	A	GOLGLYCEROL	V - 109
1byf_A_105	1byf	A	ACTACETATE ION	A - 114
1byf_A_105	1byf	A	ZNZINC ION	R - 115
1byf_A_105	1byf	A	ACTACETATE ION	R - 115
1e87_A_180	1e87	A	GOLGLYCEROL	C - 186
1e87_A_180	1e87	A	GOLGLYCEROL	E - 187
1e87_A_180	1e87	A	GOLGLYCEROL	N - 189
1e87_A_180	1e87	A	ZNZINC ION	K - 196
1g1s_A_104	1g1s	A	GALD-GALACTOSE	N - 105
1g1s_A_104	1g1s	A	FUCFUCOSE	N - 105
1g1s_A_104	1g1s	A	SRSTRONTIUM ION	N - 105
1g1s_A_104	1g1s	A	FUCFUCOSE	D - 106
1g1s_A_104	1g1s	A	SRSTRONTIUM ION	D - 106
1g1s_A_104	1g1s	A	GALD-GALACTOSE	E - 107
1g1s_A_104	1g1s	A	NAGN-ACETYL-D-GLUCOSAMINE	E - 107
1g1s_A_104	1g1s	A	FUCFUCOSE	E - 107
1g1s_A_104	1g1s	A	SRSTRONTIUM ION	E - 107
1g1s_A_104	1g1s	A	TYSSULFONATED TYROSINE	L - 110
1g1s_A_104	1g1s	A	TYSSULFONATED TYROSINE	K - 111
1g1s_A_104	1g1s	A	GALD-GALACTOSE	K - 111
1g1s_A_104	1g1s	A	NAGN-ACETYL-D-GLUCOSAMINE	K - 111
1g1s_A_104	1g1s	A	FUCFUCOSE	K - 111
1g1s_A_104	1g1s	A	TYSSULFONATED TYROSINE	K - 112
1g1s_A_104	1g1s	A	TYSSULFONATED TYROSINE	K - 113
1g1s_A_104	1g1s	A	GALD-GALACTOSE	K - 113
1g1s_A_104	1g1s	A	TYSSULFONATED TYROSINE	H - 114
1g1s_A_104	1g1s	A	MPD2-METHYL-2,4-PENTANEDIOL	Y - 118
1hup_*_211	1hup	*	CACALCIUM ION	N - 212
1hup_*_211	1hup	*	CACALCIUM ION	D - 213
1hup_*_211	1hup	*	CACALCIUM ION	V - 214
1i7a_A_54	1i7a	A	FLCCITRATE ANION	N - 58
1i7a_A_54	1i7a	A	FLCCITRATE ANION	S - 59
1i7a_A_54	1i7a	A	FLCCITRATE ANION	T - 60
1iod_A_115	1iod	A	CGUGAMMA-CARBOXY-GLUTAMIC ACID	N - 116
1iod_A_115	1iod	A	CGUGAMMA-CARBOXY-GLUTAMIC ACID	F - 117
1iod_A_115	1iod	A	CGUGAMMA-CARBOXY-GLUTAMIC ACID	Q - 121
1iod_A_115	1iod	A	CACALCIUM ION	Q - 121
1iod_A_115	1iod	A	CACALCIUM ION	E - 128
1jzn_A_118	1jzn	A	GLCGLUCOSE	N - 119
1jzn_A_118	1jzn	A	GALD-GALACTOSE	N - 119
1jzn_A_118	1jzn	A	CACALCIUM ION	N - 119
1jzn_A_118	1jzn	A	GALD-GALACTOSE	D - 120
1jzn_A_118	1jzn	A	CACALCIUM ION	D - 120
1jzn_A_118	1jzn	A	GALD-GALACTOSE	Q - 121
1jzn_A_118	1jzn	A	GALD-GALACTOSE	V - 122
1r13_A_213	1r13	A	CACALCIUM ION	N - 214
1r13_A_213	1r13	A	CACALCIUM ION	D - 215
1r13_A_213	1r13	A	CACALCIUM ION	R - 216
1r13_A_213	1r13	A	MES2-(N-MORPHOLINO)-ETHANESULFONIC ACID	R - 216
1r13_A_213	1r13	A	MES2-(N-MORPHOLINO)-ETHANESULFONIC ACID	Y - 221
1r13_A_213	1r13	A	MES2-(N-MORPHOLINO)-ETHANESULFONIC ACID	R - 222
1tn3_*_162	1tn3	*	CACALCIUM ION	F - 164
1tn3_*_162	1tn3	*	CACALCIUM ION	D - 165
1tn3_*_162	1tn3	*	CACALCIUM ION	K - 166
1ukm_A_116	1ukm	A	CRYPROPANE-1,2,3-TRIOL	N - 117
1ukm_A_116	1ukm	A	CRYPROPANE-1,2,3-TRIOL	N - 118
1ukm_A_116	1ukm	A	CRYPROPANE-1,2,3-TRIOL	I - 119
1uv0_A_132	1uv0	A	ZNZINC ION	K - 146
1uv0_A_132	1uv0	A	ZNZINC ION	F - 147

PDB Site Annotated loops in this subclass

Loop	PDB	Chain	Site	Residue
1byf_A_105	1byf	A	CAACARBOHYDRATE BINDING CALCIUM SITE	D - 107
1byf_A_105	1byf	A	CAACARBOHYDRATE BINDING CALCIUM SITE	D - 108
1ixx_A_115	1ixx	A	S1CALCIUM-BINDING SITE.	E - 128
1tn3_*_162	1tn3	*	CA2CALCIUM BINDING SITE 2.	D - 165

Clusters included in this Subclass