2025-06-14_00000209|medium|9KTL

Cryo-EM structure of reduced form of formate dehydrogenase from Rhodobacter aestuarii (RaFDH) with NADH; Electron microscopy 3.09Å
Protein #1 958 residues (99% resolved)

MKDLIIPPLDWTQDMGTPARHGAPVTLTVDGVEVTVPAGTSVLRAAAQAGISIPKLCATDSVEPVGSCRLCMVEIEGMRGMPSSCTTPVAAGMQVHTQTPQLQKLRRGVMELYISDHPLDCLTCAANGDCELQDMAGAVGLREVRYTKGENHFEVRQGGEANPCYIPKDTSNPYFSYDPAKCIVCMRCVRACEEVQGTFALTVDGRGFEARISPAADNFLASDCVSCGACVQACPTATLVEKSVEEIGTPERKVVTTCAYCGVGCSFEAHMRGEELVRMVPWKGGAANRGHSCVKGRFAYGYATHRDRILKPMIREKVSDPWREVSWEEALGFTAARLNAARATHGADALGVITSSRCTNEETYLVQKLARAVFGTNNTDTCARVCHSPTGYGLKQTFGTSAGTQDFDSVEDTDLALVIGANPTDGHPVFASRLRKRLRAGAKLIVVDPRRIDLLETPHIGDSWHLPLRPGTNVAVLVALAHVIVTEKLYDAAFISERCDGDEWADYAEFVSNPEYAPEAVESLTGVPADTLREAARAYAAAPNAAIYYGLGVTEHSQGSTTVIAIANLAMMTGNIGRPGVGVNPLRGQNNVQGSCDMGSFPHELPGYRHVADDAARSLFEKAWGVALSSEPGLRIPNMLDAAVAGQFKALYVQGEDILQSDPDTRHVAAGLAAMDLVIVHDLFLNETANYAHVFLPGSSFLEKDGTFTNAERRINRVRRVMRPKNGYADWEVTQLLANALGAGWAYTHPREIMAEIAATTPGFANVTYEMLDARGSVQWPCNEAAPEGSPIMHVDGFVRGKGRFIRTAYLPTDERTGPRFPLLLTTGRILSQYNVGAQTRRTENVAWHAEDRLEIHPTDAENRGIREGDWVRVASRAGETTLRATVTDRVSPGVVYTTFHHPDTQANVVTTDNSDWATNCPEYKVTAVQVAPSNGPSAWQEDYTAQATAARRIEAAE

MKDLIIPPLDWTQDMGTPARHGAPVTLTVDGVEVTVPAGTSVLRAAAQAGISIPKLCATDSVEPVGSCRLCMVEIEGMRGMPSSCTTPVAAGMQVHTQTPQLQKLRRGVMELYISDHPLDCLTCAANGDCELQDMAGAVGLREVRYTKGENHFEVRQGGEANPCYIPKDTSNPYFSYDPAKCIVCMRCVRACEEVQGTFALTVDGRGFEARISPAADNFLASDCVSCGACVQACPTATLVEKSVEEIGTPERKVVTTCAYCGVGCSFEAHMRGEELVRMVPWKGGAANRGHSCVKGRFAYGYATHRDRILKPMIREKVSDPWREVSWEEALGFTAARLNAARATHGADALGVITSSRCTNEETYLVQKLARAVFGTNNTDTCARVCHSPTGYGLKQTFGTSAGTQDFDSVEDTDLALVIGANPTDGHPVFASRLRKRLRAGAKLIVVDPRRIDLLETPHIGDSWHLPLRPGTNVAVLVALAHVIVTEKLYDAAFISERCDGDEWADYAEFVSNPEYAPEAVESLTGVPADTLREAARAYAAAPNAAIYYGLGVTEHSQGSTTVIAIANLAMMTGNIGRPGVGVNPLRGQNNVQGSCDMGSFPHELPGYRHVADDAARSLFEKAWGVALSSEPGLRIPNMLDAAVAGQFKALYVQGEDILQSDPDTRHVAAGLAAMDLVIVHDLFLNETANYAHVFLPGSSFLEKDGTFTNAERRINRVRRVMRPKNGYADWEVTQLLANALGAGWAYTHPREIMAEIAATTPGFANVTYEMLDARGSVQWPCNEAAPEGSPIMHVDGFVRGKGRFIRTAYLPTDERTGPRFPLLLTTGRILSQYNVGAQTRRTENVAWHAEDRLEIHPTDAENRGIREGDWVRVASRAGETTLRATVTDRVSPGVVYTTFHHPDTQANVVTTDNSDWATNCPEYKVTAVQVAPSNGPSAWQEDYTAQATAARRIEAAE
Protein #2 70 residues (94% resolved)

MSDEKLIRMANQIAAFFAVQPADRAEGVAAHISDNWAAPMRAALLAHIAAGGAGLDALVVDAAPHIRPAG

MSDEKLIRMANQIAAFFAVQPADRAEGVAAHISDNWAAPMRAALLAHIAAGGAGLDALVVDAAPHIRPAG
Protein #3 150 residues (99% resolved)

MTDLARLRAILTAHEGREGALLPILHDVQADYGHIPDAALEPIAKALRLSRAEVAGVVGFYHDFRRSPAGKHVIKLCRAEACQAMGGDGVQARLEAALGLKLGETKHDITLEAAYCLGLCACAPAAMVNDALVGRLDDAAVDTIAAEVRA

MTDLARLRAILTAHEGREGALLPILHDVQADYGHIPDAALEPIAKALRLSRAEVAGVVGFYHDFRRSPAGKHVIKLCRAEACQAMGGDGVQARLEAALGLKLGETKHDITLEAAYCLGLCACAPAAMVNDALVGRLDDAAVDTIAAEVRA
Protein #4 502 residues (99% resolved)

MKIWVPCDAAAKACGAERVVAEITAQAAARGVSVDIRRNGTRGMVWLEPLVEVETEAGRVGFGPMTPADVPALFEDLAAHPKALGLVEEIPFFKRQTRLTFARCGRNEPLCLDQYETTGGWDGLRKALAMTPAEVVEEIISSGLRGRGGAGFPTGIKWRTVLGAAADQKYIVCNVDEGDSGSFADRMLIEGDPFCLIEGMAVAGHAVGATRGYVYIRSEYPDCISVMRAAIILAEQSGILAEAGFSLEVRVGAGAYVCGEETAMLNSIEGKRGTVRPKPPLPALEGLFGKPTVVNNLLSLAAVPWILAHGGAAYQSYGIDRSRGTIPLQVGGNVKYGGLFETGFGITLGELVMDVCGGTASGRPVKAVQVGGPLGAYHPQADFDLPFCYELFAGQGGLVGHAGLVVHDDRADMLKLARFAMEFCAVESCGTCTPCRIGAVRGVETLDRIAAGDAAALPLLDDLCDTMKYGSLCALGGFTPYPVQSAIRHFPQDFPVLREAAE

MKIWVPCDAAAKACGAERVVAEITAQAAARGVSVDIRRNGTRGMVWLEPLVEVETEAGRVGFGPMTPADVPALFEDLAAHPKALGLVEEIPFFKRQTRLTFARCGRNEPLCLDQYETTGGWDGLRKALAMTPAEVVEEIISSGLRGRGGAGFPTGIKWRTVLGAAADQKYIVCNVDEGDSGSFADRMLIEGDPFCLIEGMAVAGHAVGATRGYVYIRSEYPDCISVMRAAIILAEQSGILAEAGFSLEVRVGAGAYVCGEETAMLNSIEGKRGTVRPKPPLPALEGLFGKPTVVNNLLSLAAVPWILAHGGAAYQSYGIDRSRGTIPLQVGGNVKYGGLFETGFGITLGELVMDVCGGTASGRPVKAVQVGGPLGAYHPQADFDLPFCYELFAGQGGLVGHAGLVVHDDRADMLKLARFAMEFCAVESCGTCTPCRIGAVRGVETLDRIAAGDAAALPLLDDLCDTMKYGSLCALGGFTPYPVQSAIRHFPQDFPVLREAAE
Non polymer #5 6MO

InChI=1S/Mo/q+6

[Mo+6]
Non polymer #6 FES

InChI=1S/2Fe.2S

S1[Fe]S[Fe]1
Non polymer #7 FMN

InChI=1S/C17H21N4O9P/c1-7-3-9-10(4-8(7)2)21(15-13(18-9)16(25)20-17(26)19-15)5-11(22)14(24)12(23)6-30-31(27,28)29/h3-4,11-12,14,22-24H,5-6H2,1-2H3,(H,20,25,26)(H2,27,28,29)/t11-,12+,14-/m0/s1

Cc1cc2c(cc1C)N(C3=NC(=O)NC(=O)C3=N2)C[C@@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O
Non polymer #8 MGD

InChI=1S/C20H26N10O13P2S2/c21-19-26-13-7(15(33)28-19)24-6-12(47)11(46)5(41-17(6)25-13)2-40-45(37,38)43-44(35,36)39-1-4-9(31)10(32)18(42-4)30-3-23-8-14(30)27-20(22)29-16(8)34/h3-6,9-10,17-18,24,31-32,46-47H,1-2H2,(H,35,36)(H,37,38)(H3,22,27,29,34)(H4,21,25,26,28,33)/t4-,5-,6+,9-,10-,17-,18-/m1/s1

c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]4C(=C([C@H]5[C@@H](O4)NC6=C(N5)C(=O)NC(=N6)N)S)S)O)O)N=C(NC2=O)N
Non polymer #9 NAI

InChI=1S/C21H29N7O14P2/c22-17-12-19(25-7-24-17)28(8-26-12)21-16(32)14(30)11(41-21)6-39-44(36,37)42-43(34,35)38-5-10-13(29)15(31)20(40-10)27-3-1-2-9(4-27)18(23)33/h1,3-4,7-8,10-11,13-16,20-21,29-32H,2,5-6H2,(H2,23,33)(H,34,35)(H,36,37)(H2,22,24,25)/t10-,11-,13-,14-,15-,16-,20-,21-/m1/s1

c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)N5C=CCC(=C5)C(=O)N)O)O)O)O)N
Non polymer #10 SF4

InChI=1S/4Fe.4S

[S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
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Reference