9RLI: PDB entry 9RLI

Name: PDB 9RLI: LolCDEdelta(235-252) complex with Pal lipoprotein
Published: 2026-01-21
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: protein transport

LolCDEdelta(235-252) complex with Pal lipoprotein. Determined by electron microscopy at 3.63 Å resolution. Released 21 Jan 2026.

Method: Electron microscopy
Resolution: 3.63 Å
Organism: Escherichia coli K-12
Chains: 5
Atoms: 10,673
Mol. weight: 158.31 kDa
Ligands: PLM, Z41
Released: 21 Jan 2026

Explore 9RLI in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

9RLI contains 53 α-helices and 57 β-strands across 5 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain C: 18 helices, 15 β-strands

Element	Residues	Length	Sheet
α-helix	5-14	10
α-helix	21-27	7
α-helix	29-55	27
α-helix	56-60	5
β-strand	66-69	4	1
β-strand	75	1	2
α-helix	82-84	3
β-strand	90-96	7	1
β-strand	98-104	7	3
β-strand	109-117	9	3
α-helix	126-128	3
β-strand	129-130	2	3
α-helix	134-136	3
β-strand	143-147	5	3
α-helix	148-154	7
β-strand	160-161	2	3
β-strand	163-165	3	3
β-strand	181-182	2	3
α-helix	184	1
β-strand	185-190	6	3
α-helix	195-198	4
β-strand	200-204	5	3
α-helix	205-211	7
α-helix	214-215	2
β-strand	219	1	2
β-strand	221-226	6	1
α-helix	235-237	3
α-helix	240-241	2
β-strand	245-248	4	1
α-helix	250-303	54
α-helix	307-347	41
α-helix	362-389	28
α-helix	392-395	4

Chain D: 7 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	4-9	6	7
β-strand	13-15	3	8
β-strand	22-25	4	8
β-strand	31-33	3	7
β-strand	37-41	5	9
α-helix	50-55	6
β-strand	65-68	4	7
β-strand	72	1	7
α-helix	78-88	11
β-strand	90-92	3	9
α-helix	104-114	11
α-helix	119-133	15
α-helix	150-160	11
β-strand	166-170	5	9
α-helix	178-194	17
β-strand	198-202	5	9
α-helix	208-211	4
β-strand	214-218	5	9
β-strand	223-224	2	9

Chain E: 14 helices, 14 β-strands

Element	Residues	Length	Sheet
α-helix	5-16	12
α-helix	22-58	37
β-strand	66-68	3	4
α-helix	78-86	9
β-strand	91	1	5
β-strand	96-99	4	4
β-strand	102-103	2	6
β-strand	112-113	2	6
β-strand	114-118	5	4
α-helix	120-126	7
α-helix	129-132	4
β-strand	133	1	4
β-strand	147-151	5	4
α-helix	152-158	7
β-strand	166-170	5	6
β-strand	183-187	5	6
β-strand	188-193	6	4
α-helix	198-202	5
β-strand	203-207	5	4
α-helix	208-214	7
β-strand	223-226	4	4
β-strand	228	1	5
α-helix	239-281	43
α-helix	283-292	10
α-helix	296-327	32
α-helix	329-340	12
α-helix	361-387	27
α-helix	391-395	5

Chain F: 8 helices, 12 β-strands

Element	Residues	Length	Sheet
β-strand	4-9	6	10
β-strand	13-15	3	11
β-strand	22-25	4	11
β-strand	31-33	3	10
β-strand	37-41	5	12
α-helix	50-55	6
β-strand	65-68	4	10
β-strand	72	1	10
α-helix	73-75	3
α-helix	78-88	11
β-strand	90-92	3	12
α-helix	104-115	12
α-helix	119-133	15
α-helix	150-159	10
β-strand	166-170	5	12
α-helix	178-195	18
β-strand	198-202	5	12
α-helix	208-210	3
β-strand	214-218	5	12
β-strand	223-224	2	12

Chain P: 6 helices, 4 β-strands

Element	Residues	Length	Sheet
α-helix	33-46	14
β-strand	49-51	3	13
α-helix	61-63	3
α-helix	64-76	13
β-strand	82-87	6	13
α-helix	94-115	22
α-helix	119-121	3
β-strand	122-128	7	13
α-helix	139-145	7
β-strand	147-151	5	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Lipoprotein-releasing system transmembrane protein LolC	C	protein	399	Escherichia coli K-12	P0ADC3 (AlphaFold model)
Lipoprotein-releasing system transmembrane protein LolE	E	protein	398	Escherichia coli K-12	P75958 (AlphaFold model)
Lipoprotein-releasing system ATP-binding protein LolD	D, F	protein	241	Escherichia coli K-12	P75957 (AlphaFold model)
Peptidoglycan-associated lipoprotein	P	protein	162	Escherichia coli K-12	P0A912 (AlphaFold model)

Sequence of entity 1 (C), FASTA

>9RLI_1 Lipoprotein-releasing system transmembrane protein LolC (chains C)
MYQPVALFIGLRYMRGRAADRFGRFVSWLSTIGITLGVMALVTVLSVMNGFERELQNNIL
GLMPQAILSSEHGSLNPQQLPETAVKLDGVNRVAPITTGDVVLQSARSVAVGVMLGIDPA
QKDPLTPYLVNVKQTDLEPGKYNVILGEQLASQLGVNRGDQIRVMVPSASQFTPMGRIPS
QRLFNVIGTFAANSEVDGYEMLVNIEDASRLMRYPAGNITGWRLWLDEPLKVDSLSQQKL
PEGSKWQDWRDRKGELFQAVRMEKNMMGLLLSLIVAVAAFNIITSLGLMVMEKQGEVAIL
QTQGLTPRQIMMVFMVQGASAGIIGAILGAALGALLASQLNNLMPIIGVLLDGAALPVAI
EPLQVIVIALVAMAIALLSTLYPSWRAAATQPAEALRYE

Sequence of entity 2 (E), FASTA

>9RLI_2 Lipoprotein-releasing system transmembrane protein LolE (chains E)
MAMPLSLLIGLRFSRGRRRGGMVSLISVISTIGIALGVAVLIVGLSAMNGFERELNNRIL
AVVPHGEIEAVDQPWTNWQEALDHVQKVPGIAAAAPYINFTGLVESGANLRAIQVKGVNP
QQEQRLSALPSFVQGDAWRNFKAGEQQIIIGKGVADALKVKQGDWVSIMIPNSNPEHKLM
QPKRVRLHVAGILQLSGQLDHSFAMIPLADAQQYLDMGSSVSGIALKMTDVFNAGSSWIG
TYGYMYRDIQMIRAIMYLAMVLVIGVACFNIVSTLVMAVKDKSGDIAVLRTLGAKDGLIR
AIFVWYGLLAGLFGSLCGVIIGVVVSLQLTPIIEWIEKLIGHQFLSSDIYFIDFLPSELH
WLDVFYVLVTALLLSLLASWYPARRASNIDPARVLSGQ

Sequence of entity 3 (D, F), FASTA

>9RLI_3 Lipoprotein-releasing system ATP-binding protein LolD (chains D, F)
MNKILLQCDNLCKRYQEGSVQTDVLHNVSFSVGEGEMMAIVGSSGSGKSTLLHLLGGLDT
PTSGDVIFNGQPMSKLSSAAKAELRNQKLGFIYQFHHLLPDFTALENVAMPLLIGKKKPA
EINSRALEMLKAVGLDHRANHRPSELSGGERQRVAIARALVNNPRLVLADEPTGNLDARN
ADSIFQLLGELNRLQGTAFLVVTHDLQLAKRMSRQLEMRDGRLTAELSLMGAEGSHHHHH
H

Sequence of entity 4 (P), FASTA

>9RLI_4 Peptidoglycan-associated lipoprotein (chains P)
CSSNKNASNDGSEGMLGAGTGMDANGGNGNMSSEEQARLQMQQLQQNNIVYFDLDKYDIR
SDFAQMLDAHANFLRSNPSYKVTVEGHADERGTPEYNISLGERRANAVKMYLQGKGVSAD
QISIVSYGKEKPAVLGHDEAAYSKNRRAVLVYGSWSHPQFEK

Ligands and cofactors

ID	Name	Formula	Copies
PLM	Palmitic acid	C16 H32 O2	1
Z41	(2S)-3-hydroxypropane-1,2-diyl dihexadecanoate	C35 H68 O5	1

Primary citation

Liganded LolCDE structures reveal a common substrate-LolE interaction guiding bacterial lipoprotein transport. Szewczyk, P., Greene, N.P., Symmons, M.F. et al. Proc Natl Acad Sci U S A (2026) 123:e2520579123-e2520579123. DOI 10.1073/pnas.2520579123 · PubMed

Other PDB entries of the same protein (UniProt P0ADC3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5NAA 1.88 Å, Lipoprotein-releasing system transmembrane protein LolC
6F3Z 2.0 Å, Complex of E. coli LolA and periplasmic domain of LolC
6F49 2.02 Å, Periplasmic domain of LolC lacking the Hook.
9RLC 2.8 Å, LolCDE complex with Lpp lipoprotein
9XRO 2.88 Å, LolCDE in complex with SMT-738_3
9RLJ 2.9 Å, LolCDE with bound ATPgammaS
9RLD 3.0 Å, LolCDE complex with Lpp lipoprotein
9RLG 3.09 Å, LolCDE complex with LolB lipoprotein
9RLF 3.17 Å, LolCDE complex with Pal lipoprotein
9RLE 3.18 Å, LolCDE complex with Pal lipoprotein
9RLH 3.19 Å, LolCDE complex with del 9-15 LolB lipoprotein
7ARJ 3.2 Å, LolCDE in complex with lipoprotein and AMPPNP complex undimerized form

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