SitesBLAST
Comparing WP_012708366.1 NCBI__GCF_000018545.1:WP_012708366.1 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)
7xcnP Crystal structure of the mttb-mttc complex at 2.7 a resolution (see paper)
36% identity, 90% coverage: 12:219/232 of query aligns to 2:211/215 of 7xcnP
- binding 5-hydroxybenzimidazolylcobamide: D104 (= D112), I105 (= I113), H106 (= H114), I108 (= I116), G109 (= G117), V113 (= V121), S150 (≠ M158), S151 (= S159), L153 (= L161), M154 (≠ L162), T155 (= T163), M180 (≠ L188), G182 (= G190), G183 (= G191), G200 (≠ C208), S202 (≠ D210), A203 (= A211)
1y80A Structure of a corrinoid (factor iiim)-binding protein from moorella thermoacetica
54% identity, 53% coverage: 99:222/232 of query aligns to 2:125/125 of 1y80A
- active site: D15 (= D112), H17 (= H114), T68 (= T165)
- binding co-5-methoxybenzimidazolylcobamide: D15 (= D112), L16 (≠ I113), H17 (= H114), D18 (= D115), I19 (= I116), G20 (= G117), V24 (= V121), G60 (= G157), M61 (= M158), S62 (= S159), L64 (= L161), L65 (= L162), T66 (= T163), I91 (≠ L188), G93 (= G190), G94 (= G191), A95 (= A192), P112 (≠ R209), D113 (= D210), A114 (= A211)
4jgiB 1.5 angstrom crystal structure of a novel cobalamin-binding protein from desulfitobacterium hafniense dcb-2 (see paper)
34% identity, 88% coverage: 19:222/232 of query aligns to 9:205/206 of 4jgiB
- active site: D95 (= D112), H97 (= H114), A148 (≠ T165)
- binding co-methylcobalamin: L63 (≠ V75), D95 (= D112), L96 (≠ I113), H97 (= H114), D98 (= D115), I99 (= I116), G100 (= G117), F104 (≠ V121), G140 (= G157), S142 (= S159), L145 (= L162), G173 (= G190), G174 (= G191), V175 (≠ A192), S191 (≠ C208), T192 (≠ R209), N193 (≠ D210), A194 (= A211)
2i2xB Crystal structure of methanol:cobalamin methyltransferase complex mtabc from methanosarcina barkeri (see paper)
33% identity, 88% coverage: 14:218/232 of query aligns to 37:238/258 of 2i2xB
- active site: D134 (= D112), H136 (= H114), T187 (= T165)
- binding 5-hydroxybenzimidazolylcob(iii)amide: G133 (= G111), D134 (= D112), V135 (≠ I113), H136 (= H114), D137 (= D115), I138 (= I116), G139 (= G117), V143 (= V121), T179 (≠ G157), T181 (≠ S159), L183 (= L161), M184 (≠ L162), T185 (= T163), A208 (≠ V186), G210 (= G190), G211 (= G191), G212 (≠ A192), G228 (≠ C208), E229 (≠ R209), E230 (≠ D210), A231 (= A211)
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)
33% identity, 88% coverage: 14:218/232 of query aligns to 37:238/258 of Q46EH4
- H129 (≠ G107) mutation to K: Does not affect cobalamin-binding.
- H136 (= H114) mutation H->G,K: Abolishes cobalamin-binding.
Sites not aligning to the query:
- 256:258 HKH→KKK: Does not affect cobalamin-binding.
3ivaA Structure of the b12-dependent methionine synthase (meth) c-teminal half with adohcy bound (see paper)
34% identity, 77% coverage: 15:192/232 of query aligns to 8:185/576 of 3ivaA
- active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
- binding cobalamin: H109 (= H114), G112 (= G117), V116 (= V121), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191)
Sites not aligning to the query:
- binding cobalamin: 208, 209, 303, 443, 486, 488, 489, 495, 520, 521, 524, 527, 528
- binding s-adenosyl-l-homocysteine: 447, 484, 485, 489, 491, 539
3bulA E. Coli i690c/g743c meth c-terminal fragment (649-1227) (see paper)
34% identity, 77% coverage: 15:192/232 of query aligns to 8:185/577 of 3bulA
- active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
- binding cobalamin: H109 (= H114), V116 (= V121), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191)
Sites not aligning to the query:
- binding cobalamin: 208, 209, 210, 213, 302, 443, 486, 487, 488, 489, 495, 498, 521, 524, 527, 528
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)
34% identity, 77% coverage: 15:192/232 of query aligns to 658:835/1227 of P13009
- E694 (≠ T51) binding methylcob(III)alamin
- GDVHD 756:760 (≠ GDIHD 111:115) binding methylcob(III)alamin
- D757 (= D112) mutation to E: Decreases activity by about 70%.; mutation to N: Decreases activity by about 45%.
- H759 (= H114) binding axial binding residue; mutation to G: Loss of catalytic activity.
- S804 (= S159) binding methylcob(III)alamin
- T808 (= T163) binding methylcob(III)alamin
- S810 (≠ T165) mutation to A: Decreases activity by about 40%.
Sites not aligning to the query:
- 1 modified: Initiator methionine, Removed
- 247 binding Zn(2+)
- 310 binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
- 311 binding Zn(2+); mutation C->A,S: Loss of zinc binding. Loss of catalytic activity.
- 860 binding methylcob(III)alamin
- 946 binding S-adenosyl-L-methionine
- 1134 binding S-adenosyl-L-methionine
- 1189:1190 binding S-adenosyl-L-methionine
1bmtA How a protein binds b12: a 3.O angstrom x-ray structure of the b12- binding domains of methionine synthase (see paper)
35% identity, 77% coverage: 15:192/232 of query aligns to 8:185/246 of 1bmtA
- active site: D107 (= D112), H109 (= H114), S160 (≠ T165)
- binding co-methylcobalamin: E44 (≠ T51), M48 (≠ V55), M51 (= M58), G55 (= G62), L65 (≠ V72), V68 (= V75), D107 (= D112), V108 (≠ I113), H109 (= H114), D110 (= D115), I111 (= I116), I115 (≠ L120), G152 (= G157), L153 (≠ M158), S154 (= S159), L156 (= L161), I157 (≠ L162), T158 (= T163), G183 (= G190), G184 (= G191), A185 (= A192)
Sites not aligning to the query:
8sseA Methionine synthase, c-terminal fragment, cobalamin and reactivation domains from thermus thermophilus hb8 (see paper)
36% identity, 79% coverage: 16:198/232 of query aligns to 2:179/507 of 8sseA
Sites not aligning to the query:
- binding cobalamin: 405, 409, 451, 452, 453, 454, 463, 485, 488, 490, 492
8g3hA Structure of cobalamin-dependent methionine synthase (meth) in a resting state (see paper)
34% identity, 85% coverage: 1:198/232 of query aligns to 615:805/841 of 8g3hA
- binding cobalamin: F675 (= F65), V685 (= V75), K693 (= K83), G720 (= G111), V722 (≠ I113), H723 (= H114), D724 (= D115), I725 (= I116), G726 (= G117), V730 (= V121), M767 (= M158), S768 (= S159), L770 (= L161), V772 (≠ T163), I795 (≠ L188), L796 (≠ V189), G797 (= G190), G798 (= G191), A799 (= A192)
Sites not aligning to the query:
3ezxA Structure of methanosarcina barkeri monomethylamine corrinoid protein
35% identity, 80% coverage: 18:203/232 of query aligns to 3:193/212 of 3ezxA
- active site: D100 (= D112), H102 (= H114), S155 (≠ T165)
- binding 5-hydroxybenzimidazolylcobamide: M47 (= M58), F54 (= F65), D100 (= D112), I101 (= I113), H102 (= H114), D103 (= D115), I104 (= I116), V109 (= V121), V147 (≠ G157), S149 (= S159), L151 (= L161), M152 (≠ L162), T153 (= T163), M178 (≠ L188), G180 (= G190), G181 (= G191)
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)
36% identity, 63% coverage: 46:192/232 of query aligns to 704:861/1265 of Q99707
Sites not aligning to the query:
- 61 natural variant: R -> K
- 255 C → Y: in dbSNP:rs1140598
- 382:384 binding (6S)-5,6,7,8-tetrahydrofolate
- 449 binding (6S)-5,6,7,8-tetrahydrofolate
- 470 binding (6S)-5,6,7,8-tetrahydrofolate
- 537 binding (6S)-5,6,7,8-tetrahydrofolate
- 579 binding (6S)-5,6,7,8-tetrahydrofolate
- 585 binding (6S)-5,6,7,8-tetrahydrofolate
- 591 binding (6S)-5,6,7,8-tetrahydrofolate
- 919 D → G: in dbSNP:rs1805087
- 963 D→E: Decreases binding to MTRR; when associated with N-1071.
- 1071 K→N: Decreases binding to MTRR; when associated with E-963.
8j2xA Saccharothrix syringae photocobilins protein, light state (see paper)
24% identity, 51% coverage: 99:216/232 of query aligns to 88:203/337 of 8j2xA
- binding cobalamin: W102 (≠ I113), H103 (= H114), A104 (≠ D115), L105 (≠ I116), P106 (≠ G117), V110 (= V121), A146 (≠ G157), L147 (≠ M158), S148 (= S159), L151 (= L162), L173 (= L188), V174 (= V189), G175 (= G190), G176 (= G191), A195 (≠ C208), P196 (≠ R209), T197 (≠ D210), A198 (= A211)
Sites not aligning to the query:
- binding cobalamin: 46, 49, 53, 56, 57, 287
- binding biliverdine ix alpha: 56, 250, 253, 254, 257, 258, 261, 264, 287, 292, 295, 297, 301
Q59268 2-methyleneglutarate mutase; Alpha-methyleneglutarate mutase; EC 5.4.99.4 from Eubacterium barkeri (Clostridium barkeri) (see paper)
39% identity, 38% coverage: 103:191/232 of query aligns to 474:562/614 of Q59268
- D483 (= D112) mutation to N: Activity reduced 2000-fold.
- H485 (= H114) mutation to Q: Loss of activity.
Sites not aligning to the query:
- 464 H→Q: No effect on activity.
8j2yA Acidimicrobiaceae bacterium photocobilins protein, dark state (see paper)
27% identity, 45% coverage: 102:205/232 of query aligns to 90:191/327 of 8j2yA
- binding cobalamin: D100 (= D112), W101 (≠ I113), H102 (= H114), L104 (≠ I116), S105 (≠ G117), M108 (≠ L120), F109 (≠ V121), S147 (= S159), F153 (≠ T165), V173 (= V189), G174 (= G190), G175 (= G191), R176 (≠ A192)
Sites not aligning to the query:
1xrsB Crystal structure of lysine 5,6-aminomutase in complex with plp, cobalamin, and 5'-deoxyadenosine (see paper)
29% identity, 51% coverage: 104:222/232 of query aligns to 73:211/212 of 1xrsB
- active site: K95 (≠ M125)
- binding cobalamin: D82 (= D112), A83 (≠ I113), H84 (= H114), T85 (≠ D115), V86 (≠ I116), I91 (≠ V121), Y97 (≠ G127), L136 (≠ G157), V137 (≠ M158), S138 (= S159), T142 (= T163), L170 (= L188), C171 (≠ V189), G172 (= G190), G173 (= G191), P174 (≠ A192), F190 (vs. gap), G191 (vs. gap), P192 (vs. gap), R194 (vs. gap)
E3PRJ4 Lysine 5,6-aminomutase beta subunit; 5,6-LAM; D-lysine 5,6-aminomutase beta subunit; L-beta-lysine 5,6-aminomutase beta subunit; EC 5.4.3.3 from Acetoanaerobium sticklandii (strain ATCC 12662 / DSM 519 / JCM 1433 / CCUG 9281 / NCIMB 10654 / HF) (Clostridium sticklandii) (see paper)
29% identity, 51% coverage: 104:222/232 of query aligns to 122:260/262 of E3PRJ4
- 130:136 (vs. 112:117, 43% identical) binding adenosylcob(III)alamin
- K144 (≠ M125) modified: N6-(pyridoxal phosphate)lysine
- 185:192 (vs. 157:164, 25% identical) binding adenosylcob(III)alamin
- LCGGP 219:223 (≠ LVGGA 188:192) binding adenosylcob(III)alamin
- FGPGRF 239:244 (≠ -----Y 207) binding adenosylcob(III)alamin
5c8eA Crystal structure of thermus thermophilus carh bound to adenosylcobalamin and a 26-bp DNA segment (see paper)
26% identity, 82% coverage: 16:205/232 of query aligns to 70:258/273 of 5c8eA
- binding cobalamin: L117 (≠ V55), L120 (≠ M58), G124 (= G62), E137 (≠ V75), G170 (= G111), R172 (≠ I113), H173 (= H114), E174 (≠ D115), G176 (= G117), S218 (≠ T164), L221 (≠ M169), G243 (= G190), G244 (= G191)
Sites not aligning to the query:
- binding cobalamin: 260, 263
- binding : 20, 25, 26, 33, 36, 37, 38, 38, 39, 62
5c8dE Crystal structure of full-length thermus thermophilus carh bound to adenosylcobalamin (dark state) (see paper)
26% identity, 82% coverage: 16:205/232 of query aligns to 71:259/280 of 5c8dE
- binding cobalamin: L118 (≠ V55), R122 (= R59), G125 (= G62), E138 (≠ V75), S142 (≠ A79), G171 (= G111), R173 (≠ I113), H174 (= H114), E175 (≠ D115), G177 (= G117), S219 (≠ T164), L222 (≠ M169), G244 (= G190), G245 (= G191)
Sites not aligning to the query:
Query Sequence
>WP_012708366.1 NCBI__GCF_000018545.1:WP_012708366.1
MADDEIILEDLSDEELVQQMHDDLYDGLKEEIEDGTNILLERGWTPYDILTQALVEGMRI
VGIDFRDGILFVPEVLLSANAMKAGMTILRPLLAETGAPKLGKMVIGTVKGDIHDIGKNL
VGMMMEGAGFDVVDLGINNPVENYLEAIEREQPDILGMSALLTTTMPYMKVVIDTMKEKG
LRDDYVVLVGGAPLNEEFGKAVGADAYCRDAAVAVETAKDYMRRKHNQLAAG
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