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9ubx

The atomic coordinates of the mouse CatSper trimer

Method: ELECTRON MICROSCOPY D_max: 308.9 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ubx
deposition_date	2025-04-03
title	The atomic coordinates of the mouse CatSper trimer
keywords	sperm, hyperactivation, calcium channel, PROTEIN TRANSPORT; PROTEIN TRANSPORT
method	ELECTRON MICROSCOPY

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Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

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2. SAXS Parameters (CRYSOL)

rg_guinier	— Å
rg_electron	120.20 Å
i0	51161700000.00
molecular_weight	2052500.0 kDa
excluded_volume	2609200 Å³
envelope_volume	5427200 Å³
shell_volume	371040 Å³
envelope_diameter	395.1 Å
shell_rg	123.00 Å
envelope_rg	114.00 Å
shape_rg	120.30 Å
total_rg	120.10 Å
total_atoms	144816
n_residues	18063
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

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3. P(r) Analysis (GNOM)

dmax	308.9 Å
rg_real	116.90 Å
rg_real_error	0.82 Å
i0_real	4.9020e+10
i0_real_error	9.5960e+08
rg_reciprocal	121.00 Å
i0_reciprocal	51020000000.0000
total_estimate	0.9057
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	166.3 Å
skewness	0.021
kurtosis	-0.734
angular_range	— – 0.0650 Å⁻¹
current_alpha	0.8239
highest_alpha	3092000000.0000
n_real_points	14
gnom_version	4.1.3
quality_criteria	AN1: 0.001; Oscil: 0.996; Stabil: 0.970; Sysdev: 1.000; Positv: 1.000; Valcen: 0.877; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (21)

Entity 1 polymer

description	Cation channel sperm-associated protein 1
formula_weight	29080.7 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,n,a
atom_count	144816

LLGLQQMILSLTQSLGFETFIFIVVCLNTVILVAQTFTELEIRGEWYFMVLDSIFLSIYVLEAVLKLIALGLEYFYDPWNNLDFFIMVMAVLDFVLLQINSLSYSFYNHSLFRILKVFKSMRALRAIRVLRRLSILTSLHEVAGTLSGSLPSITAILTLMFTCLFLFSVVLRALFQDSDPKRFQNIFTTLFTLFTMLTLDDWSLIYIDNRAQGAWYIIPILMIYIVIQYFIFLNLVIAVLVDNFQMALLKG

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 2 polymer

description	Cation channel sperm-associated protein 2
formula_weight	33115.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	B,o,b

PLSLWAGWVLDSSVFSKFIISLIFLNTFVLMVEIELMESTNTALWPVKLALEVADWFILLSFIVEILLMWLASFSLFWKDAWNVFDFFVTLLSLLPELVVLLGVPAHSVWLQLLRVCRVLRSLKLFARFRQIKVILLALVRALKSMTFLLMLLLIFFYIFAVTGVYFFREYSRSTIEGLEYNMFFSDLLNSLVTVFILFTLDHWYAVLQDIWKVPESSRVFSSIYVILWLLLGSIIFRNIIVAMMVTNFQNIRSELSEEMSHLEVQYKADMFKQQIIQRRQ

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 3 polymer

description	Cation channel sperm-associated protein 3
formula_weight	32308.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	C,p,c

ECQAYFRKVIKSTFFQIVMITTVTTNSFLLVLGTNYDIQFEFFRTFEVSELFFVSVYVCEFLMKVYVDPITYWKDGYNILDVIILIILTIPYLLRKIKGNHSAYLHFADGIQSLRILKLISYSRGIRTLIIAVGETVYTVASVLTLLFLLMFVFAILGFCLFGVTDRGDLENWGNLASAFFTLFSLATVDGWTDLQEELDKRKFTVSRAFTILFILLASFIFLNMFVGVMIMHTEDSMKKFERDLTLERNLAIMEEKQIILKRQQEEVNRLMNTQKSG

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 4 polymer

description	Cation channel sperm-associated protein 4
formula_weight	28880.4 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	D,q,d

DVMEKKDAWDVQEFITQMYIKQLLRHPAFQLLLAFLLLSNAITIALRTNSYLGQKHYELFSTIDDIVLTILICEVLLGWLNGFWIFWKDGWNILNFAIVFILFMGFFIKQLDMVAITYPLRVLRLVHVCMAVEPLARIIKVILQSMPDLANVMALILFFMLVFSVFGVTLFGAFVPKHFQNMGVALYTLFICITQDGWLDIYTDFQMDEREYAMEVGGAIYFAVFITLGAFIGLNLFVVVVTTNLEQMMK

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 5 polymer

description	Cation channel sperm-associated auxiliary subunit beta
formula_weight	121580.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	E,r,e

VIHNKGKERTYFSCSGEGILTGLHTIKLFLTMDNLKVRCFFRNENQSPSKEILGLFTSGGLAPNMIITNSTFYGGYYFKLTPFSNRLEWLIDIPRQNITVNTDIAAVEQWMIKITMHEGLNIYDTEGTLLDLVREPILQWNLGRVLTEMEVRDLYPEVNDIKVTKSPCANDVALIGFMMKPSSNGVFIGKTISGFWTYKECIWHDLTEIIYAELKDEHQGLTVIDLVLTNHFLVILTSLGLYVSSDLRYPTTSQIKLSRAEFCGFERVDYIRGNLWYNEKCFANRESFEVDYVTITFNRNRTLSESSSCFFSKEPFLHWLPCVFSTIKNEKSIPRVITFLIDQETDSGIYLFNVQDTKETYVTVAMLKDGKPSPRPKFPSFHFPSTFTLPLGMIFHPRSHFLYVYGSQIWVSMDGGNTFEMLCNLFSHHVTKTSNSFYTSDIVFIVEDGRILTTKAGLTTYSELGILKDAIFTLYYDQLGYIHKLTPENFDAGSKLLGHGNSGSIFGKRPDLGFEAILVPQYISTNEMYFFAHVPLTMPTNIQWKKRFKTIHLGKTIEFSKTGLANIKNVYMHKTEPVGFQTSIHTEIIVPFGIENSKDSPCLLSDLEITYSGKLYYTIKLLSKNPLHELKSTDVEKSVLIPGYSSFLIMNITDKWTASALATMPQAIKSNLKFLTGSWFLYNFGTAGGRKWSISTRQCNYWIQQDSLDFMSLNLVKYIDVGNTIDFQFKIIPKAMSTFPIPPVSMVVGNPGLVEVKTQGVFDLNENYYLDIHVSGRFFQKGSTSIALVLWEGSSKCYAITLLPTIKSSCSYLRTMHHTPGRHIPPEDWISGVHKDSQGFNMIKTLPINYRPPSHMGISIPLTDNFYHADPSKPIPRNQFHKSKETGKYKQCANVTSRAMCNCSEHQKFSHAVAFSDCKEKVHRFKFPVTQYPVVLEIFNERDKISAEPPYLVTMTEVNMRKNWQLKHNEPENVKKMKHYLEPLLKTPVYNPLGLNLTIQGSELFHFKVSVVPGVSFCELSEEFQIYVDEVPLPFPGHALIAVATSVVLGVLIFIAFVFQLRNIH

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 6 polymer

description	Cation channel sperm-associated auxiliary subunit gamma 2
formula_weight	119864.4 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	F,f,s

HCTWLLVLNKFEKVGLHLSKDRFQDHEPIDTVAKVFQKLTDSPIDPSENYLSFPYYLQINFSCPGQNIEELARKGHLMGMKPMVQINYMYSVNFYRWEMENVQILMEAAPMRSTGYCPAEAMCVLNWYTPMPFKNGSVVSSVDIYTNGIGPFVSKKRFYVNMNGFLKRDASGKSLFAIGYESLVLKSSHFRLSKSRPLWYTVNHAPVFILGGFYDEKSILFSDSNFQDYVLLELSIDSCWVGSFYCPILGFSATIHDAIATESTLFIRQNQLVYYFTGTYITLFDKSHGSSRWVRVLPSECIKRLCPVYASGNGSEYVLALTTGKNEGYIHIGTITDGLVSFEMVPDGWSVCEKLPGKNCSIDWATYIADERNLLLLVKIDSGQFYLVNFNTEFKTLNILYKIPEFIPEAKELDFLVLLDTVTYTNTPMTPKGLFFNTLNNMLYIWGNFILQSYNREEFIFLADFPKESTIKYMVNSFKGQMAVVTENEEIWYFLEGGYDVYQVVPSQGWETYHNLQKMQKSSFHSEDESLVSLFFEDGKLFQLVYLFDVGKERLVKRLLPVGTLMEYNLPKPFTVVNQGNYQAISFTHTCPFKEIHLIDVPKKHHASRTESYVALPPLVSESLGFHNNNTLAVYQGLVYYLLWLHSKYDKPYADPVHDPTWRWWQHKTKDKDYFFYLFSNRLAAEGIYINMNAYQKLYNMSGDYGIPDLFFLDKGNWFTITVVLLSHQDTFTSSDSQGPTINVDKKLAIAVTIADPECLSVTVTQDVLLNRNAVINKIKVIDKKRCSEQGMIGRNIKKTSMMLKVLGAPGNCIQRTYLGGIIQGFKVVPIFIGCPPGKRLAFDVSYTIMHSEEINKHYFDCVIKDAEMPCFLFRDLFQPFFLVQDLVTGDSGSFLGSYVLKVVGGGRTLNTIRDYTEEEIFRYNSPLDTTNSLIWKTKVERTTEDKKFYIMSHESPGVEWLCLENSPCYDIIPQSIYPPEFFFKLLVSNRGVDNSTYCDYKLTFIVHIHGLPLSSKRTSFIVMVSTSFFIALVVFYILFCL

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 7 polymer

description	Cation channel sperm-associated auxiliary subunit delta
formula_weight	82834.3 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	G,t,g

HTLCRVHTVRTGKVFKSNIQLQGDPLFYAFPNTFVLKNVCKADISVYLGQKVFLTIDNFESSLLPLTVPKSLAVGVPSITSAHFVSGSLVLFVISGKGYSYDYYENTWRKLEGISEPVSHISGDVCCFKGSFCLELSNNLFAYLRGGQIPGTNIYFSDNGGFSFQLMNTDKLSHLTGTLGGIFHLHSMSQVGVLMVENNLGTFHYMEYPLNHSMGIAFSYKNLLEVIMKPYQRGFMVLWNQKSILVSSNSGQIVEHVRLIDQKIFTDLDVEHANINIYSVASNAYELAFLVAEDHLYYGSQSYMGTYVIKLPHQPLWSTHTSIYFEDIGILQVLTPVADPHFAAYDFDKCTVNVQSSLMDEKLALQPCNVELLESTMINTMFTIDMNSKLKLSALMIPRKGENPTPLVMVSNPHALGFKANLNEFGNTFDGNSKYKLDIELKQQHHWGNSDFNFTASIKRHAISSVTVDIADKTLSCVDLKPLSTLISVGCDMTKKIVVQNKISACTMGILNPVQLQKNYTYTIEKEAYDPINHNGEAQDDLIVFYEYKDLGCPRLVYYDKPWKPVVELWKNGIVEEIMNAEYVISEINGLVTYSYSLTAATANCRSQPQNWSTFESDIENEEPFLWNRENYVSCHEDNKDNPLLWPNVEYQVLGGQTNNKIIFGQRNGIYTFHLSVVDPYYSYCNLNTIFSVYVHGALPVTKFQPLLTILLMVTTTLLTAWLAYAIPKQLRS

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 8 polymer

description	Cation channel sperm-associated auxiliary subunit epsilon
formula_weight	107004.0 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	H,u,h

LWRYYINSQDYSIFSTRSSIKLEYEGNSFVSWKIPESCKVENTTSPKTTLHCKRAGIHTIKPIAGNQEVERHLTVDNSYICYLWYFTVVDVYYNLSQIVTIWVYDPESASTEELIWTAKKPSLSSRVLTKQMNTLGQRPFIFTVEKRLTYHPGPLTSEGTWVIHLPMSSDDIAKVIRGNKVAFQDCFIANLYFMLTYPMTIISEPPGYEPLTVPPGSPLMLSWDTCISTFALLATDQETFQTNDSFQTWTRVRAPPGILSDAQRHSLRDVIIFDQGTLFLVDGTVYLRTEDEFTKLDESRGISETGILGFSKRRWCQIRYLYKLASKKSILIAWSKTTVYAGYATFRFVTLTDTAKLKDFLKLPQTDTLEVMSVEYLWHPLEAAVLLSHCSVCTTNTRNIRIVIYSAIFQTWTLQDFELQLPKEAILEFRFLYSAMPDIIMWDQHHVYYSYKNFTVVGTISTPSGETNLSSLSQGSKIHQVLTDRIGNVVVKMENNVMFYIKADITEAVILHTWVNTTAKTVVLFDKSFEVCILYYNENLDEKYQLQTQPYPLILELQSINKDLGDWCPYLAFQHNIHSQFYHMDKGESLTIWSQIVYPENRGLYIVVEHYGSSVMTWTQNLEYEIASGFCTKTMITRFFQTTNYELVDNYYQLQKENTGLMLLQFRPSEFSRTCLTAKPVFEIDVGCDSSKYIMVRGFNKSRCQRRDFSYVIDKELLRESLSDNLKVRYDVAKYGCPLTLELGQMFQPIVELYDENGFIKIVDANFILWEIHGRNDYTFNSTMEQNGCINEAQTWDSMIEENPDIPLDDVWGPQNYRPCFSYAIGKPGDLGQPYEILNYSNKNHIKWPMTYAGMYVYRLKILDPNYSFCNLTTIFAIESLGMIPRSSVYLVAALIFVLMLTFISILVLSYFWYLKIYRQF

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 9 polymer

description	EF-hand calcium-binding domain-containing protein 9
formula_weight	20942.3 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	I,i,Q

MKLTPGCFLWYLYMDKIYCLLSLRNVKALMVYFHLLDVHHRNTLNDVLFFHFLQHVTNLNKSQIGMIFDLLDWTAVGEIGFDQFYVLICILLAHQDHLEDHFMYRHSRPVFELLDLDGEMNIGAANFQNYRFLFNIKKQELRDLFHDFDITGDRLLNYKEFKLYTIFCTDKSID

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 10 polymer

description	Cation channel sperm-associated auxiliary subunit TMEM249
formula_weight	19898.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	J,w,j

MCWVMPPSVFVLEYYLDTLWKGTMLFIICLVFISCNVLREVKYQETWCFPAYGMVIGLWLMLSSIPQRRLVLNHTRGMYHFSIQGRTVCQGPMHLVYVRLALSSDAYGGRFFQLVLCGHKLEPLVLVQLSERYEQMEFLGRHLARKLNINYFDYLASSYRHVVRHWPL

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 11 polymer

description	Cation channel sperm-associated auxiliary subunit zeta
formula_weight	17504.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	K,x,k

TANVSVSDVCEDFDEEGKSVRNRIRKYSQTISIRDSLNLEPEEIQQQARRELELCHGRSLEHGEDHEESETSLASSTSESLIFSLWKPHRTYWTEQQNRLPLPLMELMETEVLDILKKALITYRSTIGRNHFMTKELQGYIEGIRKRRN

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 12 polymer

description	Solute carrier organic anion transporter family member 6C1
formula_weight	68349.7 kDa
mutation	A224G
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	L,y,l

PIVLPFVQRFNNIDGFMTLYVAAVLIHGALFAVVDMTLNIYQVQFSLTRTEWYLMDFSDYIASFVVAIIIAHFGSKGNRTRWIAASCILMGLESMLFAFPFFTYEIIIPGRQSIELCMEENEKRNIICGNSVPNRSKCIYFHIGGQCIHGIAGMPIYILGITFIFDHIPTSSCGFYLAIGHSAYLIGYLLGMVGGLQNFQPPPKEKTVEIEPAKVYQLLQSGWWKTFLIIAAISFCVSFMMVCFPTSLPGAHKLRLAKRKEPPTIDRRLKDMKIQPHLKGFLHNIWHILKNPLMLTQAICKVSEYLTFNTSLYFLPHHLQTQFLITPGIASLLTGAFVLPGGIIGHFLGGLIVDRLEMTNKNKLKFTLVTTVVSVGLFLLIFFVECQTTTFAGINEDYDGYGQLGNLTADCNEYCDCTTSLYTSICGRDEKEYFSPCFAGCKATKVSQTEKTYYNCSCIKEGLAASDDEGQFIDAIAGTCDSDCLKLPLFFAFYFSATVFSNMCSIPVISIILQSVPANFTSLSLGVTYAIVKFVASVPAPLLFRLSSAIACIYWDNNRCGGKERCWIYNKNILVYEFMGIWMSSQLIIVLLNIYAIQIHDVVVHGEITE

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 13 polymer

description	Cation channel sperm-associated auxiliary subunit TMEM262
formula_weight	13350.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	M,z,m

MRWRDRIAVLCFPPGLMLTVAALILFFIHMGVFASDVHNFCVIHNYDHMSFRYTVVLIFSQVISIGWAAMGSLYAEMTGDKFLRCFALTILILNGAMFFNRLCLEFLAINYREER

Source

organism	Mus musculus
common_name	house mouse
ncbi_taxonomy_id	10090
host_organism	Mus musculus

Entity 14 polymer

description	Unknown protein
formula_weight	2401.0 kDa
src_method	nat
entity_count	3

Polymer

type	polypeptide(L)
strand_id	N,P,O

XXXXXXXXXXXXXXXXXXXXXXXXXXXX

Entity 15 branched

description	;beta-D-mannopyranose-(1-2)-beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	1235.1 kDa
src_method	man
entity_count	3

Entity 16 branched

description	beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	586.5 kDa
src_method	man
entity_count	15

Entity 17 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	6

Entity 18 branched

description	;beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-6)-[beta-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	1235.1 kDa
src_method	man
entity_count	3

Entity 19 branched

description	;beta-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	910.8 kDa
src_method	man
entity_count	3

Entity 20 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	man
entity_count	27

Entity 21 non-polymer

description	CHOLESTEROL
formula_weight	386.7 kDa
src_method	syn
entity_count	3

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6. Citations (1)

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resolution	6.80 Å
resolution_method	—
num_particles	69708

fit	/app/data/saxs_computation/ub/9ubx/9ubx.fit
pddf	/app/data/pr_computation/ub/9ubx/9ubx.pr.out
profile	/app/data/saxs_computation/ub/9ubx/9ubx.dat

The atomic coordinates of the mouse CatSper trimer

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

EM 3D

5. Entities & Polymer Info (21)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

Entity 6 polymer

Polymer

Source

Entity 7 polymer

Polymer

Source

Entity 8 polymer

Polymer

Source

Entity 9 polymer

Polymer

Source

Entity 10 polymer

Polymer

Source

Entity 11 polymer

Polymer

Source

Entity 12 polymer

Polymer

Source

Entity 13 polymer

Polymer

Source

Entity 14 polymer

Polymer

Entity 15 branched

Entity 16 branched

Entity 17 branched

Entity 18 branched

Entity 19 branched

Entity 20 non-polymer

Entity 21 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)