Comparing GFF2059 FitnessBrowser__psRCH2:GFF2059 to proteins with known functional sites using BLASTp with E ≤ 0.001.
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Found 20 (the maximum) hits to proteins with known functional sites (download)
P13009 Methionine synthase; 5-methyltetrahydrofolate--homocysteine methyltransferase; Methionine synthase, vitamin-B12-dependent; MS; EC 2.1.1.13 from Escherichia coli (strain K12) (see 5 papers)
67% identity, 100% coverage: 5:1229/1230 of query aligns to 2:1225/1227 of P13009
Sites not aligning to the query:
Q99707 Methionine synthase; MS; 5-methyltetrahydrofolate--homocysteine methyltransferase; Cobalamin-dependent methionine synthase; Vitamin-B12 dependent methionine synthase; EC 2.1.1.13 from Homo sapiens (Human) (see 6 papers)
56% identity, 99% coverage: 15:1230/1230 of query aligns to 26:1264/1265 of Q99707
3ivaA Structure of the b12-dependent methionine synthase (meth) c-teminal half with adohcy bound (see paper)
62% identity, 47% coverage: 654:1229/1230 of query aligns to 3:575/576 of 3ivaA
3bulA E. Coli i690c/g743c meth c-terminal fragment (649-1227) (see paper)
62% identity, 47% coverage: 654:1229/1230 of query aligns to 3:575/577 of 3bulA
4cczA Crystal structure of human 5-methyltetrahydrofolate-homocysteine methyltransferase, the homocysteine and folate binding domains
55% identity, 51% coverage: 15:638/1230 of query aligns to 10:610/611 of 4cczA
8g3hA Structure of cobalamin-dependent methionine synthase (meth) in a resting state (see paper)
37% identity, 68% coverage: 13:844/1230 of query aligns to 7:806/841 of 8g3hA
Sites not aligning to the query:
3k13C Structure of the pterin-binding domain metr of 5- methyltetrahydrofolate-homocysteine methyltransferase from bacteroides thetaiotaomicron
66% identity, 23% coverage: 359:642/1230 of query aligns to 4:286/287 of 3k13C
6bdyA Crystal structure of the meth reactivation domain bound to sinefungin (see paper)
57% identity, 26% coverage: 915:1229/1230 of query aligns to 12:325/326 of 6bdyA
1mskA Methionine synthase (activation domain) (see paper)
57% identity, 26% coverage: 915:1229/1230 of query aligns to 12:325/327 of 1mskA
1bmtA How a protein binds b12: a 3.O angstrom x-ray structure of the b12- binding domains of methionine synthase (see paper)
71% identity, 20% coverage: 654:894/1230 of query aligns to 3:241/246 of 1bmtA
8sseA Methionine synthase, c-terminal fragment, cobalamin and reactivation domains from thermus thermophilus hb8
31% identity, 44% coverage: 659:1196/1230 of query aligns to 1:506/507 of 8sseA
3bofA Cobalamin-dependent methionine synthase (1-566) from thermotoga maritima complexed with zn2+ and homocysteine (see paper)
27% identity, 48% coverage: 9:601/1230 of query aligns to 5:538/560 of 3bofA
1q8jA Cobalamin-dependent methionine synthase (1-566) from thermotoga maritima (cd2+, hcy, methyltetrahydrofolate complex) (see paper)
27% identity, 48% coverage: 9:601/1230 of query aligns to 5:538/559 of 1q8jA
5vooA Methionine synthase folate-binding domain with methyltetrahydrofolate from thermus thermophilus hb8 (see paper)
36% identity, 23% coverage: 357:635/1230 of query aligns to 1:273/282 of 5vooA
2i2xB Crystal structure of methanol:cobalamin methyltransferase complex mtabc from methanosarcina barkeri (see paper)
36% identity, 13% coverage: 676:841/1230 of query aligns to 55:216/258 of 2i2xB
Sites not aligning to the query:
Q46EH4 Methanol--corrinoid protein; Methanol:corrinoid methyltransferase 1 subunit of 27 kDa; MT1 subunit 27 kDa from Methanosarcina barkeri (strain Fusaro / DSM 804) (see paper)
36% identity, 13% coverage: 676:841/1230 of query aligns to 55:216/258 of Q46EH4
Sites not aligning to the query:
7xcnP Crystal structure of the mttb-mttc complex at 2.7 a resolution (see paper)
30% identity, 14% coverage: 690:863/1230 of query aligns to 36:213/215 of 7xcnP
4jgiB 1.5 angstrom crystal structure of a novel cobalamin-binding protein from desulfitobacterium hafniense dcb-2 (see paper)
33% identity, 11% coverage: 701:836/1230 of query aligns to 45:174/206 of 4jgiB
Sites not aligning to the query:
3ezxA Structure of methanosarcina barkeri monomethylamine corrinoid protein
37% identity, 12% coverage: 691:840/1230 of query aligns to 36:185/212 of 3ezxA
Sites not aligning to the query:
4djfA Crystal structure of folate-bound corrinoid iron-sulfur protein (cfesp) in complex with its methyltransferase (metr), co-crystallized with folate and ti(iii) citrate reductant (see paper)
28% identity, 20% coverage: 362:602/1230 of query aligns to 4:230/262 of 4djfA
>GFF2059 FitnessBrowser__psRCH2:GFF2059
MSTRSSRLQALQQALKERILILDGGMGTMIQSYKLEEEDYRGTRFADWPQDVKGNNDLLL
LSRPDIIQAIEKAYLDAGADILETNTFNATRVSQADYGMEELVYELNVEGARLAREVADA
KTAETPDRPRFVAGVLGPTSRTCSISPDVNNPGYRNVTFDLLVENYVEATRGLIEGGADL
ILIETIFDTLNAKAAIFAVQQVFEDEGVELPIMISGTITDASGRTLSGQTTEAFWNSVRH
AKPISVGLNCALGAKDLRPYLEELSSKAETFVSAHPNAGLPNAFGEYDESPAEMAAVVEE
FAASGFLNIIGGCCGTTPAHIQAIAEAVSKYPPRAIPDIPKACRLSGLEPFTIDRSSLFV
NVGERTNITGSAKFARLIREENYTEALEVALQQVEAGAQVIDINMDEGMLDSKAAMVTFL
NLIAGEPDISRVPIMIDSSKWEVIEAGLKCIQGKGIVNSISMKEGVEQFKQQAHLCKRYG
AAVVVMAFDEAGQADTAARKREICKRSYDILVNEVGFPPEDIIFDPNIFAIATGIEEHNN
YAVDFIEACAYIRDNLPYALTSGGVSNVSFSFRGNNPVREAIHSVFLFHAIKAGLTMGIV
NAGQLEIYDEIPKELRDAVEDVVLNRSANGTEGLLELADKYKGDGSVKEAETEEWRSLPV
DKRLEHALVKGITAFIVEDTEECRQQCKRPIEVIEGPLMSGMNVVGDLFGAGKMFLPQVV
KSARVMKQAVAHLIPFIEAEKGDKPEAKGKILMATVKGDVHDIGKNIVGVVLGCNGYDVV
DMGVMVPAEKILQTAIAEKCDIIGLSGLITPSLDEMVHVAKEMQRQGFSLPLMIGGATTS
KAHTAVKIDPQYHNDAVVYVTDASRAVGVATTLLSKELKPAFVEKTREEYAMIRERTANR
SARTERLSYAQAVANKPQFDWASYTPVKPSFTGRQLLEDIDLRTLAEYIDWTPFFIAWDL
AGKYPRILEDEVVGEAATALFSDAQAMLNKLIDEKLIRARAVFGFWPANQVQDDDLEVYG
DGGEKLATLHHLRQQIIKPDAKPNLSLADFVAPKDSGITDYVGGFICTAGIGAEELAKAY
QDKGDDYNSIMVKALADRLAEACAEWLHQQVRKQYWGYAKDEQLSNEELIREQYKGIRPA
PGYPACPDHTEKGTLFQLLDADGISQVTLTEHYAMLPTAAVSGWYFAHPEAQYFAVGKID
KDQVESYSQRKGEDIAVSERWLMPNLGYDN
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SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.
Lawrence Berkeley National Laboratory