SitesBLAST

SitesBLAST – Find functional sites

SitesBLAST

Comparing WP_011811033.1 NCBI__GCF_000015565.1:WP_011811033.1 to proteins with known functional sites using BLASTp with E ≤ 0.001.

Or try Sites on a Tree, PaperBLAST, Conserved Domains, or compare to all protein structures

Found 2 hits to proteins with known functional sites (download)

Q007T0 Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial; Iron-sulfur subunit of complex II; Ip; Malate dehydrogenase [quinone] iron-sulfur subunit; EC 1.3.5.1; EC 1.1.5.- from Sus scrofa (Pig) (see paper)
29% identity, 23% coverage: 8:102/412 of query aligns to 175:270/280 of Q007T0

query
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Q007T0

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C186 (= C25) binding [4Fe-4S] cluster
C189 (= C28) binding [4Fe-4S] cluster
C192 (= C31) binding [4Fe-4S] cluster
C196 (= C35) binding [3Fe-4S] cluster
W201 (≠ L40) binding a ubiquinone
C243 (= C75) binding [3Fe-4S] cluster
C249 (= C81) binding [3Fe-4S] cluster
C253 (= C85) binding [4Fe-4S] cluster

Sites not aligning to the query:

93 binding [2Fe-2S] cluster
98 binding [2Fe-2S] cluster
101 binding [2Fe-2S] cluster
113 binding [2Fe-2S] cluster

P21912 Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial; Iron-sulfur subunit of complex II; Ip; Malate dehydrogenase [quinone] iron-sulfur subunit; EC 1.3.5.1; EC 1.1.5.- from Homo sapiens (Human) (see 10 papers)
29% identity, 23% coverage: 8:102/412 of query aligns to 175:270/280 of P21912

query
sites
P21912

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C186 (= C25) binding [4Fe-4S] cluster
C189 (= C28) binding [4Fe-4S] cluster
C192 (= C31) binding [4Fe-4S] cluster
C196 (= C35) binding [3Fe-4S] cluster
W201 (≠ L40) binding a ubiquinone
C243 (= C75) binding [3Fe-4S] cluster
C249 (= C81) binding [3Fe-4S] cluster
C253 (= C85) binding [4Fe-4S] cluster
L257 (≠ V89) to V: in MC2DN4; decreased succinate dehydrogenase (ubiquinone) activity; decreased protein levels in homozygous patient cells; dbSNP:rs761350633

Sites not aligning to the query:

3 A → G: found in a patient with a Cowden-like phenotype; uncertain significance; patient cells have increased manganese superoxide dismutase expression and normal levels of reactive oxygen species; 1.2-fold increase in AKT expression and 1.3-fold change in MAPK expression in patient cells; dbSNP:rs11203289
40 natural variant: K -> E
48 D → V: in MC2DN4; decreased succinate dehydrogenase (ubiquinone) activity in homozygous patient cells; decreased protein levels in homozygous patient cells; dbSNP:rs202101384
93 binding [2Fe-2S] cluster
98 binding [2Fe-2S] cluster
100 S → F: in PPGL4; absence of expression in tumor cells indicating complete loss of SDHB function; dbSNP:rs121917755
101 binding [2Fe-2S] cluster
102 A → T: in MC2DN4; uncertain significance; dbSNP:rs777578399
113 binding [2Fe-2S] cluster
146:218 Interaction with SDHAF1
163 S → P: found in a patient with a Cowden-like phenotype; uncertain significance; patient cells have increased manganese superoxide dismutase expression and increased levels of reactive oxygen species; 2.7-fold increase in AKT expression and a 1.7-fold increase in MAPK expression; dbSNP:rs33927012

Query Sequence

>WP_011811033.1 NCBI__GCF_000015565.1:WP_011811033.1
MQTRLAPEYRDRADGLEAEAILRQCVHCGFCSATCPTYQLLGDELDSPRGRIYLIKQVLE
GEAPSRKTQLHLDRCLTCRNCESTCPSGVQYGHLLDIGRKIVDEQVSRPLGEQALRWALK
EGLPSPLFAPAMKAGQLLRGLLPAALKAKVPAAQDAGAWPAGQHARRVLLLAGCVQPAML
PNINRATARVLDAAGIQTLIAAKAGCCGALAFHLDDQEGGKAAMRTNIDAWWPLLESGSV
EAIVSNASGCGVTVKEYGHILGNDPRYAAKAARISALARDLSELLPELAERLQGRVQPPD
RRYAYHPPCTLQHGQKLRGGVETWLTQLGLNLRVAGNDAHLCCGSAGTYSVLQPQLAQQL
RERKLLALGQAFGAPAPHAILSANIGCITHLQSGTGLPVRHWVEALDEALHA

Or try a new SitesBLAST search

SitesBLAST's Database

SitesBLAST's database includes (1) SwissProt entries with experimentally-supported functional features; and (2) protein structures with bound ligands, from the BioLip database.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory