3W5C: SERCA1a

Crystal structure of the calcium pump in the E2 state free from exogenous inhibitors. Determined by X-ray diffraction at 2.5 Å resolution. Released 6 Mar 2013.

Method: X-ray diffraction
Resolution: 2.5 Å
Organism: Oryctolagus cuniculus
Chains: 1
Atoms: 7,782
Mol. weight: 113.32 kDa
Ligands: PTY
Released: 6 Mar 2013

Explore 3W5C in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

3W5C contains 55 α-helices and 37 β-strands across 1 chain. 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: 55 helices, 37 β-strands

Element	Residues	Length	Sheet
α-helix	4-6	3
α-helix	9-16	8
β-strand	19	1	1
β-strand	23	1	1
β-strand	24	1	2
α-helix	26-36	11
α-helix	41-45	5
α-helix	49-55	7
α-helix	60-75	16
α-helix	89-111	23
α-helix	116-119	4
β-strand	126-130	5	3
β-strand	131	1	2
β-strand	138-141	4	3
α-helix	142-144	3
β-strand	150-154	5	3
β-strand	158	1	4
β-strand	162-168	7	3
β-strand	173-176	4	4
α-helix	178-181	4
β-strand	187-189	3	4
α-helix	201-203	3
β-strand	207-208	2	3
β-strand	213-216	4	4
β-strand	218-225	8	3
α-helix	227-229	3
α-helix	231-240	10
α-helix	243-247	5
α-helix	248-274	27
α-helix	276-280	5
α-helix	288-306	19
α-helix	311-327	17
β-strand	331-333	3	5
α-helix	336-343	8
β-strand	347-351	5	5
β-strand	357	1	6
β-strand	362-373	12	7
β-strand	375-384	10	7
β-strand	395-397	3	7
β-strand	400-401	2	7
α-helix	404-406	3
α-helix	408-419	12
β-strand	424-428	5	8
β-strand	433-437	5	8
α-helix	440-452	13
α-helix	467-469	3
α-helix	470-478	9
β-strand	479-488	10	7
β-strand	493-500	8	7
β-strand	511-516	6	7
α-helix	518-523	6
β-strand	525-530	6	7
β-strand	533-536	4	7
α-helix	539-554	16
β-strand	560-567	8	7
α-helix	570-572	3
α-helix	573-575	3
α-helix	581-583	3
α-helix	584-587	4
β-strand	591-600	10	7
α-helix	602	1
β-strand	603	1	6
α-helix	604	1
α-helix	607-616	10
β-strand	620-625	6	5
α-helix	629-639	11
β-strand	652-654	3	5
α-helix	655-660	6
α-helix	663-672	10
β-strand	675-677	3	5
α-helix	683-692	10
β-strand	698-702	5	5
α-helix	704-713	10
β-strand	716-720	5	5
α-helix	725-729	5
β-strand	733-735	3	5
α-helix	740-780	41
α-helix	789-794	6
α-helix	795-799	5
α-helix	801-807	7
α-helix	810-813	4
α-helix	816-818	3
α-helix	820-823	4
α-helix	832-856	25
α-helix	889-892	4
α-helix	894-913	20
α-helix	927-929	3
α-helix	931-949	19
α-helix	952-956	5
α-helix	961-963	3
α-helix	964-974	11
α-helix	976-990	15

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
SERCA1a	A	protein	995	Oryctolagus cuniculus	P04191 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>3W5C_1 SERCA1a (chains A)
XMEAAHSKSTEECLAYFGVSETTGLTPDQVKRHLEKYGHNELPAEEGKSLWELVIEQFED
LLVRILLLAACISFVLAWFEEGEETITAFVEPFVILLILIANAIVGVWQERNAENAIEAL
KEYEPEMGKVYRADRKSVQRIKARDIVPGDIVEVAVGDKVPADIRILSIKSTTLRVDQSI
LTGESVSVIKHTEPVPDPRAVNQDKKNMLFSGTNIAAGKALGIVATTGVSTEIGKIRDQM
AATEQDKTPLQQKLDEFGEQLSKVISLICVAVWLINIGHFNDPVHGGSWIRGAIYYFKIA
VALAVAAIPEGLPAVITTCLALGTRRMAKKNAIVRSLPSVETLGCTSVICSDKTGTLTTN
QMSVCKMFIIDKVDGDFCSLNEFSITGSTYAPEGEVLKNDKPIRSGQFDGLVELATICAL
CNDSSLDFNETKGVYEKVGEATETALTTLVEKMNVFNTEVRNLSKVERANACNSVIRQLM
KKEFTLEFSRDRKSMSVYCSPAKSSRAAVGNKMFVKGAPEGVIDRCNYVRVGTTRVPMTG
PVKEKILSVIKEWGTGRDTLRCLALATRDTPPKREEMVLDDSSRFMEYETDLTFVGVVGM
LDPPRKEVMGSIQLCRDAGIRVIMITGDNKGTAIAICRRIGIFGENEEVADRAYTGREFD
DLPLAEQREACRRACCFARVEPSHKSKIVEYLQSYDEITAMTGDGVNDAPALKKAEIGIA
MGSGTAVAKTASEMVLADDNFSTIVAAVEEGRAIYNNMKQFIRYLISSNVGEVVCIFLTA
ALGLPEALIPVQLLWVNLVTDGLPATALGFNPPDLDIMDRPPRSPKEPLISGWLFFRYMA
IGGYVGAATVGAAAWWFMYAEDGPGVTYHQLTHFMQCTEDHPHFEGLDCEIFEAPEPMTM
ALSVLVTIEMCNALNSLSENQSLMRMPPWVNIWLLGSICLSMSLHFLILYVDPLPMIFKL
KALDLTQWLMVLKISLPVIGLDEILKFIARNYLEG

Ligands and cofactors

ID	Name	Formula	Copies
PTY	Phosphatidylethanolamine	C40 H80 N O8 P	5

Water and common crystallization additives (NA) are not listed.

Primary citation

Crystal structures of the calcium pump and sarcolipin in the Mg2+-bound E1 state. Toyoshima, C., Iwasawa, S., Ogawa, H. et al. Nature (2013) 495:260-264. DOI 10.1038/nature11899 · PubMed

Other PDB entries of the same protein (UniProt P04191 (AlphaFold model), which also has an AlphaFold model), best resolution first:

27RD 2.0 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound IPP
27QZ 2.1 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound B1HQ
27RC 2.1 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound BMP
27QY 2.12 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound AHQ
3AR4 2.15 Å, Calcium pump crystal structure with bound ATP and TG in the absence of Ca2+
3AR7 2.15 Å, Calcium pump crystal structure with bound TNP-ATP and TG in the absence of Ca2+
27RE 2.2 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound MPQ
27RF 2.2 Å, Crystal structure of SR Ca2+-ATPase in E2(TG) with bound PHQ
3AR5 2.2 Å, Calcium pump crystal structure with bound TNP-AMP and TG
3AR6 2.2 Å, Calcium pump crystal structure with bound TNP-ADP and TG in the absence of calcium
3N5K 2.2 Å, Structure Of The (Sr)Ca2+-ATPase E2-AlF4- Form
1WPG 2.3 Å, Crystal structure of the SR CA2+-ATPase with MGF4

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