3RLF: Maltose-binding periplasmic protein

Crystal structure of the maltose-binding protein/maltose transporter complex in an outward-facing conformation bound to MgAMPPNP. Determined by X-ray diffraction at 2.2 Å resolution. Released 10 Aug 2011.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Escherichia coli
Chains: 5
Atoms: 15,268
Mol. weight: 220.46 kDa
Ligands: PGV, MG, ANP, UMQ
Released: 10 Aug 2011

Explore 3RLF in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3RLF contains 103 α-helices and 103 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 A: 17 helices, 25 β-strands

Element	Residues	Length	Sheet
β-strand	4-13	10	19
β-strand	16-26	11	19
β-strand	31-35	5	20
α-helix	42-50	9
β-strand	57-62	6	19
β-strand	65-66	2	19
α-helix	72-74	3
β-strand	77-80	4	20
α-helix	92-96	5
α-helix	98-102	5
α-helix	107-120	14
α-helix	124-126	3
α-helix	131-133	3
α-helix	136-150	15
β-strand	154-158	5	20
α-helix	166-183	18
β-strand	186-190	5	20
α-helix	194-200	7
β-strand	203-208	6	20
β-strand	211-216	6	20
α-helix	218-223	6
β-strand	227	1	21
α-helix	228-233	6
α-helix	238-239	2
β-strand	240-249	10	22
β-strand	254-257	4	22
β-strand	265-268	4	22
β-strand	270	1	23
β-strand	280-285	6	22
α-helix	290	1
β-strand	291-292	2	24
α-helix	293-295	3
β-strand	299-309	11	24
β-strand	313-319	7	24
α-helix	326	1
β-strand	327-332	6	24
β-strand	342-346	5	24
α-helix	349-351	3
β-strand	353-355	3	22
β-strand	360	1	21
β-strand	361	1	22
β-strand	364	1	23

Chain B: 16 helices, 27 β-strands

Element	Residues	Length	Sheet
β-strand	4-13	10	25
β-strand	16-26	11	25
β-strand	31-35	5	26
α-helix	42-50	9
β-strand	57-62	6	25
β-strand	66	1	25
α-helix	72-74	3
β-strand	77-80	4	26
α-helix	92-104	13
α-helix	107-120	14
α-helix	131-133	3
α-helix	136-150	15
β-strand	154-158	5	26
α-helix	166-183	18
β-strand	186-190	5	26
α-helix	194-200	7
β-strand	203-208	6	26
β-strand	211-216	6	26
α-helix	218-223	6
β-strand	227	1	27
α-helix	228-233	6
α-helix	238-239	2
β-strand	240-249	10	28
β-strand	254-257	4	28
β-strand	265-268	4	28
β-strand	270	1	29
β-strand	280-285	6	28
α-helix	290	1
β-strand	291	1	30
α-helix	292	1
β-strand	299	1	30
β-strand	303-309	7	31
β-strand	313-319	7	31
α-helix	326	1
β-strand	327-332	6	31
β-strand	342	1	31
β-strand	346	1	30
α-helix	349-351	3
β-strand	353-355	3	28
β-strand	360	1	27
β-strand	361	1	28
α-helix	362-363	2
β-strand	364	1	29

Chain E: 22 helices, 26 β-strands

Element	Residues	Length	Sheet
α-helix	2-3	2
β-strand	7-10	4	1
α-helix	17-31	15
β-strand	35-38	4	1
α-helix	43-51	9
β-strand	59-63	5	1
α-helix	64-66	3
α-helix	67-73	7
β-strand	76	1	2
α-helix	77-79	3
α-helix	83-86	4
β-strand	89	1	3
α-helix	91-95	5
β-strand	98-99	2	4
β-strand	102-103	2	4
β-strand	106-111	6	1
β-strand	114-118	5	5
β-strand	128	1	6
α-helix	132-140	9
β-strand	145-147	3	5
α-helix	154-161	8
β-strand	167	1	7
β-strand	171	1	8
β-strand	176	1	8
β-strand	182	1	7
α-helix	186-200	15
α-helix	210-218	9
β-strand	222-227	6	5
α-helix	229-231	3
α-helix	232-238	7
β-strand	242-245	4	5
α-helix	246-248	3
β-strand	249	1	6
β-strand	250	1	9
β-strand	253	1	9
β-strand	258-259	2	10
β-strand	260-266	7	1
β-strand	267	1	2
α-helix	273-279	7
α-helix	280-284	5
α-helix	287-296	10
β-strand	301-302	2	1
β-strand	304	1	3
α-helix	305-311	7
α-helix	315-325	11
β-strand	328-329	2	10
α-helix	336-351	16
α-helix	357-369	13

Chain F: 29 helices, 19 β-strands

Element	Residues	Length	Sheet
α-helix	14-29	16
α-helix	31-35	5
α-helix	40-58	19
α-helix	60-62	3
α-helix	65-75	11
α-helix	76-80	5
α-helix	81-89	9
β-strand	92	1	11
β-strand	100	1	12
α-helix	102-111	10
β-strand	113-127	15	13
β-strand	130-137	8	13
β-strand	142-146	5	13
α-helix	147-148	2
β-strand	149	1	13
β-strand	155-162	8	13
α-helix	169-172	4
α-helix	173-178	6
α-helix	180-183	4
β-strand	186-189	4	13
β-strand	195-198	4	13
β-strand	203-209	7	13
β-strand	211-213	3	14
β-strand	219-221	3	14
β-strand	227-231	5	14
β-strand	236-239	4	14
β-strand	250-251	2	14
α-helix	254	1
β-strand	255	1	12
β-strand	258	1	11
α-helix	262-269	8
α-helix	277-306	30
α-helix	314-322	9
α-helix	323-325	3
α-helix	329-339	11
α-helix	346-353	8
α-helix	365-391	27
α-helix	392-394	3
α-helix	397-405	9
α-helix	410-413	4
α-helix	414-418	5
α-helix	419-438	20
α-helix	441-447	7
α-helix	451	1
β-strand	453	1	15
β-strand	462	1	15
α-helix	467-475	9
α-helix	484-501	18

Chain G: 19 helices, 6 β-strands

Element	Residues	Length	Sheet
α-helix	12-38	27
β-strand	40	1	16
β-strand	54	1	16
α-helix	57-62	6
α-helix	65-66	2
β-strand	67-68	2	17
β-strand	74-75	2	17
α-helix	81-112	32
α-helix	118-129	12
α-helix	136-148	13
α-helix	152-154	3
α-helix	159-166	8
α-helix	171-181	11
α-helix	187-194	8
α-helix	199-202	4
α-helix	203-207	5
α-helix	208-227	20
α-helix	231-236	6
α-helix	240-242	3
α-helix	245-248	4
α-helix	249-252	4
β-strand	253	1	18
β-strand	258	1	18
α-helix	260-280	21
α-helix	281-283	3

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Maltose-binding periplasmic protein	E	protein	380	Escherichia coli	P0AEX9 (AlphaFold model)
Maltose transport system permease protein malF	F	protein	514	Escherichia coli	P02916 (AlphaFold model)
Maltose transport system permease protein malG	G	protein	296	Escherichia coli	P68183 (AlphaFold model)
Maltose/maltodextrin import ATP-binding protein MalK	A, B	protein	381	Escherichia coli	P68187 (AlphaFold model)

Sequence of entity 1 (E), FASTA

>3RLF_1 Maltose-binding periplasmic protein (chains E)
KIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAATGDGPDII
FWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEALSLIYNKD
LLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYENGKYDIKD
VGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAWSNIDTSKV
NYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEAVNKDKPLG
AVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAASGRQTVDEA
LKDAQTRITKASASHHHHHH

Sequence of entity 2 (F), FASTA

>3RLF_2 Maltose transport system permease protein malF (chains F)
MDVIKKKHWWQSDALKWSVLGLLGLLVGYLVVLMYAQGEYLFAITTLILSSAGLYIFANR
KAYAWRYVYPGMAGMGLFVLFPLVCTIAIAFTNYSSTNQLTFERAQEVLLDRSWQAGKTY
NFGLYPAGDEWQLALSDGETGKNYLSDAFKFGGEQKLQLKETTAQPEGERANLRVITQNR
QALSDITAILPDGNKVMMSSLRQFSGTQPLYTLDGDGTLTNNQSGVKYRPNNQIGFYQSI
TADGNWGDEKLSPGYTVTTGWKNFTRVFTDEGIQKPFLAIFVWTVVFSLITVFLTVAVGM
VLACLVQWEALRGKAVYRVLLILPYAVPSFISILIFKGLFNQSFGEINMMLSALFGVKPA
WFSDPTTARTMLIIVNTWLGYPYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLP
LLIKPLTPLMIASFAFNFNNFVLIQLLTNGGPDRLGTTTPAGYTDLLVNYTYRIAFEGGG
GQDFGLAAAIATLIFLLVGALAIVNLKATRMKFD

Sequence of entity 3 (G), FASTA

>3RLF_3 Maltose transport system permease protein malG (chains G)
MAMVQPKSQKARLFITHLLLLLFIAAIMFPLLMVVAISLRQGNFATGSLIPEQISWDHWK
LALGFSVEQADGRITPPPFPVLLWLWNSVKVAGISAIGIVALSTTCAYAFARMRFPGKAT
LLKGMLIFQMFPAVLSLVALYALFDRLGEYIPFIGLNTHGGVIFAYLGGIALHVWTIKGY
FETIDSSLEEAAALDGATPWQAFRLVLLPLSVPILAVVFILSFIAAITEVPVASLLLRDV
NSYTLAVGMQQYLNPQNYLWGDFAAAAVMSALPITIVFLLAQRWLVNGLTAGGVKG

Sequence of entity 4 (A, B), FASTA

>3RLF_4 Maltose/maltodextrin import ATP-binding protein MalK (chains A, B)
MASVQLQNVTKAWGEVVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDL
FIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAKKEVINQRVNQVAEV
LQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNLDAALRVQMRIEISRLH
KRLGRTMIYVTHDQVEAMTLADKIVVLDAGRVAQVGKPLELYHYPADRFVAGFIGSPKMN
FLPVKVTATAIDQVQVELPMPNRQQVWLPVESRDVQVGANMSLGIRPEHLLPSDIADVIL
EGEVQVVEQLGNETQIHIQIPSIRQNLVYRQNDVVLVEEGATFAIGLPPERCHLFREDGT
ACRRLHKEPGVASASHHHHHH

Ligands and cofactors

ID	Name	Formula	Copies
PGV	(1R)-2-{[{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(palmitoylo…	C40 H77 O10 P	4
MG	Magnesium ion	Mg	2
ANP	Phosphoaminophosphonic acid-adenylate ester	C10 H17 N6 O12 P3	2
UMQ	Undecyl-maltoside	C23 H44 O11	1

Primary citation

Snapshots of the maltose transporter during ATP hydrolysis. Oldham, M.L., Chen, J. Proc Natl Acad Sci U S A (2011) 108:15152-15156. DOI 10.1073/pnas.1108858108 · PubMed

Other PDB entries of the same protein (UniProt P0AEX9 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8C8F 1.15 Å, Crystal structure of the E. coli maltodextrin-binding protein
4EXK 1.28 Å, A chimera protein containing MBP fused to the C-terminal domain of the uncharacterized…
3Q27 1.3 Å, Cyrstal structure of human alpha-synuclein (32-57) fused to maltose binding protein (MBP)
7KD4 1.31 Å, Structure of the C-terminal domain of the Menangle virus phosphoprotein (residues 329…
5M13 1.37 Å, Synthetic nanobody in complex with MBP
5HZ7 1.43 Å, High-resolution crystal structure of the minor DNA-binding pilin ComP from Neisseria…
5H7Q 1.45 Å, Crystal structure of human MNDA PYD domain with MBP tag
6XDS 1.47 Å, Crystal structure of MBP-TREM2 Ig domain fusion with fragment,…
4IRL 1.47 Å, X-ray structure of the CARD domain of zebrafish GBP-NLRP1 like protein
8SVY 1.47 Å, MBP-Mcl1 in complex with ligand 10
3MP6 1.48 Å, Complex Structure of Sgf29 and dimethylated H3K4
9CLC 1.48 Å, Crystal structure of maltose binding protein (Apo), mutant Trp10 to 4-Cyanotryptophan

Browse structure collections

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