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Sequence Alignment and Modeling Software System
http://www.soe.ucsc.edu/research/compbio/sam.html

Citations (SAM, SAM-T99, HMMs)

Sequence numbers correspond to the following labels:

    • T0293 MGC3329, Homo sapiens, 250 res
    • gi|73967244|ref|XP_537774.2|_42:291 PREDICTED: similar to Hypothetical UPF0049 protein ZK1128.2 in chromosome III isoform 1 [Canis familiaris]
    • gi|73967246|ref|XP_868505.1|_42:291 PREDICTED: similar to Hypothetical UPF0049 protein ZK1128.2 in chromosome III isoform 2 [Canis familiaris]
    • gi|38372568|sp|Q885T9|UBIG_PSESM_9:187 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|17369082|sp|Q9JXI7|UBIG_NEIMB_22:227 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|75854124|ref|ZP_00761838.1|_12:212 COG2227: 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Vibrio sp. Ex25]
    • gi|39932517|sp|Q7WGT9|UBIG_BORBR_28:198 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|75854516|ref|ZP_00762205.1|_152:358 COG2230: Cyclopropane fatty acid synthase and related methyltransferases [Vibrio sp. Ex25]
    • gi|21363053|sp|Q8Y0Z5|UBIG_RALSO_21:195 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|886102|gb|AAA75624.1|_1:225 cyclopropane mycolic acid synthase [Mycobacterium tuberculosis]
    • gi|2661671|emb|CAA15777.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 1 CMAA1 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 1) [Mycobacterium tuberculosis H37Rv]
    • gi|15610528|ref|NP_217909.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 1 CMAA1 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 1) [Mycobacterium tuberculosis H37Rv]
    • gi|1705757|sp|Q11195|CFA1_MYCTU Cyclopropane-fatty-acyl-phospholipid synthase 1 (Cyclopropane fatty acid synthase) (CFA synthase) (Cyclopropane mycolic acid synthase 1) [Taxonomy]
    • gi|76782773|ref|ZP_00769969.1| COG2230: Cyclopropane fatty acid synthase and related methyltransferases [Mycobacterium tuberculosis F11]
    • gi|18655945|pdb|1KPH|D Chain D, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Dddmab [Taxonomy]
    • gi|18655944|pdb|1KPH|C Chain C, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Dddmab [Taxonomy]
    • gi|18655943|pdb|1KPH|B Chain B, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Dddmab [Taxonomy]
    • gi|18655942|pdb|1KPH|A Chain A, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Dddmab [Taxonomy]
    • gi|18655937|pdb|1KP9|B Chain B, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1, Apo-Form [Taxonomy]
    • gi|18655936|pdb|1KP9|A Chain A, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1, Apo-Form [Taxonomy]
    • gi|81251843|ref|ZP_00876456.1| COG2230: Cyclopropane fatty acid synthase and related methyltransferases [Mycobacterium tuberculosis C]
    • gi|31620169|emb|CAD95612.1|_1:225 CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 1 CMAA1 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 1) [Mycobacterium bovis AF2122/97]
    • gi|31794572|ref|NP_857065.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 1 CMAA1 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 1) [Mycobacterium bovis AF2122/97]
    • gi|18655941|pdb|1KPG|D_15:225 Chain D, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Ctab [Taxonomy]
    • gi|18655940|pdb|1KPG|C Chain C, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Ctab [Taxonomy]
    • gi|18655939|pdb|1KPG|B Chain B, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Ctab [Taxonomy]
    • gi|18655938|pdb|1KPG|A Chain A, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa1 Complexed With Sah And Ctab [Taxonomy]
    • gi|39932512|sp|Q7W5Z6|UBIG_BORPA_28:198 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|68566013|sp|O82427|SMT2_ORYSA_92:302 24-methylenesterol C-methyltransferase 2 (24-sterol C-methyltransferase 2) (Sterol-C-methyltransferase 2) [Taxonomy]
    • gi|88193047|pdb|2FK8|A_31:250 Chain A, Crystal Structure Of Hma (Mmaa4) From Mycobacterium Tuberculosis Complexed With S-Adenosylmethionine [Taxonomy]
    • gi|88193046|pdb|2FK7|A Chain A, Crystal Structure Of Hma (Mmaa4) From Mycobacterium Tuberculosis, Apo-Form [Taxonomy]
    • gi|18655946|pdb|1KPI|A_21:247 Chain A, Crystal Structure Of Mycolic Acid Cyclopropane Synthase Cmaa2 Complexed With Sah And Dddmab [Taxonomy]
    • gi|31617271|emb|CAD93378.1|_21:247 CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 2 CMAA2 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 2) (MYCOLIC ACID TRANS-CYCLOPROPANE SYNTHETASE) [Mycobacterium bovis AF2122/97]
    • gi|1449302|emb|CAB00929.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 2 CMAA2 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 2) (MYCOLIC ACID TRANS-CYCLOPROPANE SYNTHETASE) [Mycobacterium tuberculosis H37Rv]
    • gi|31791685|ref|NP_854178.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 2 CMAA2 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 2) (MYCOLIC ACID TRANS-CYCLOPROPANE SYNTHETASE) [Mycobacterium bovis AF2122/97]
    • gi|15607644|ref|NP_215017.1| CYCLOPROPANE-FATTY-ACYL-PHOSPHOLIPID SYNTHASE 2 CMAA2 (CYCLOPROPANE FATTY ACID SYNTHASE) (CFA SYNTHASE) (CYCLOPROPANE MYCOLIC ACID SYNTHASE 2) (MYCOLIC ACID TRANS-CYCLOPROPANE SYNTHETASE) [Mycobacterium tuberculosis H37Rv]
    • gi|61220933|sp|P0A5P0|CFA2_MYCTU Cyclopropane-fatty-acyl-phospholipid synthase 2 (Cyclopropane fatty acid synthase) (CFA synthase) (Cyclopropane mycolic acid synthase 2) [Taxonomy]
    • gi|61220934|sp|P0A5P1|CFA2_MYCBO Cyclopropane-fatty-acyl-phospholipid synthase 2 (Cyclopropane fatty acid synthase) (CFA synthase) (Cyclopropane mycolic acid synthase 2) [Taxonomy]
    • gi|76785791|ref|ZP_00772955.1| COG2230: Cyclopropane fatty acid synthase and related methyltransferases [Mycobacterium tuberculosis F11]
    • gi|81255598|ref|ZP_00880071.1| COG2230: Cyclopropane fatty acid synthase and related methyltransferases [Mycobacterium tuberculosis C]
    • gi|60593724|pdb|1VQ1|B_78:289 Chain B, Crystal Structure Of N5-Glutamine Methyltransferase, Hemk(Ec 2.1.1.-) (Tm0488) From Thermotoga Maritima At 2.80 A Resolution [Taxonomy]
    • gi|60593723|pdb|1VQ1|A Chain A, Crystal Structure Of N5-Glutamine Methyltransferase, Hemk(Ec 2.1.1.-) (Tm0488) From Thermotoga Maritima At 2.80 A Resolution [Taxonomy]
    • gi|84029363|sp|Q96RS0|NC6IP_HUMAN_636:849 Putative RNA methyltransferase NCOA6IP (Nuclear receptor coactivator 6-interacting protein) (PRIP-interacting protein with methyltransferase motif) (PIPMT) (PIMT) (CLL-associated antigen KW-2) (Hepatocellular carcinoma-associated antigen 137) (HCA137) [Taxonomy]
    • gi|57013214|sp|Q6NC69|UBIG_RHOPA_4:169 3-demethylubiquinone-9 3-methyltransferase (3,4-dihydroxy-5-hexaprenylbenzoate methyltransferase) (DHHB methyltransferase) [Taxonomy]
    • gi|68178647|ref|ZP_00551759.1|_7:241 Methyltransferase small [Desulfuromonas acetoxidans DSM 684]
    • gi|67981300|gb|EAM70746.1| Methyltransferase small [Desulfuromonas acetoxidans DSM 684]
    • gi|3319278|gb|AAC26191.1|_56:245 caffeoyl-CoA 3-O-methyltransferase; CCOMT; S-adenosyl-L-methionine:caffeoyl-CoA 3-O-methyltransferase [Eucalyptus globulus]
    • gi|30580336|sp|O81185|CAMT1_EUCGL Caffeoyl-CoA O-methyltransferase 1 (Trans-caffeoyl-CoA 3-O-methyltransferase 1) (CCoAMT-1) (CCoAOMT-1) [Taxonomy]
    • gi|684942|gb|AAC28973.1|_56:231 S-adenosyl-L-methionine:trans-caffeoyl-CoA 3-O-methyltransferase [Medicago sativa subsp. sativa]
    • gi|30580341|sp|Q40313|CAMT_MEDSA Caffeoyl-CoA O-methyltransferase (Trans-caffeoyl-CoA 3-O-methyltransferase) (CCoAMT) (CCoAOMT) [Taxonomy]
    • gi|62737991|pdb|1SUS|D Chain D, Crystal Structure Of Alfalfa Feruoyl Coenzyme A 3-O- Methyltransferase [Taxonomy]
    • gi|62737990|pdb|1SUS|C Chain C, Crystal Structure Of Alfalfa Feruoyl Coenzyme A 3-O- Methyltransferase [Taxonomy]
    • gi|62737989|pdb|1SUS|B Chain B, Crystal Structure Of Alfalfa Feruoyl Coenzyme A 3-O- Methyltransferase [Taxonomy]
    • gi|62737988|pdb|1SUS|A Chain A, Crystal Structure Of Alfalfa Feruoyl Coenzyme A 3-O- Methyltransferase [Taxonomy]
    • gi|62737987|pdb|1SUI|D Chain D, Alfalfa Caffeoyl Coenzyme A 3-O-Methyltransferase [Taxonomy]
    • gi|62737986|pdb|1SUI|C Chain C, Alfalfa Caffeoyl Coenzyme A 3-O-Methyltransferase [Taxonomy]
    • gi|62737985|pdb|1SUI|B Chain B, Alfalfa Caffeoyl Coenzyme A 3-O-Methyltransferase [Taxonomy]
    • gi|62737984|pdb|1SUI|A Chain A, Alfalfa Caffeoyl Coenzyme A 3-O-Methyltransferase [Taxonomy]
    • gi|15127914|gb|AAK84355.1|_628:783 PIMT [Mus musculus]
    • gi|81879964|sp|Q923W1|NC6IP_MOUSE Putative RNA methyltransferase NCOA6IP (Nuclear receptor coactivator 6-interacting protein) (PRIP-interacting protein with methyltransferase motif) (PIPMT) (PIMT) [Taxonomy]
    • gi|68179293|ref|ZP_00552366.1|_21:211 IMP dehydrogenase/GMP reductase:UbiE/COQ5 methyltransferase [Desulfuromonas acetoxidans DSM 684]
    • gi|67980634|gb|EAM70125.1| IMP dehydrogenase/GMP reductase:UbiE/COQ5 methyltransferase [Desulfuromonas acetoxidans DSM 684]
    • gi|52696212|pdb|1VLM|B_45:193 Chain B, Crystal Structure Of Sam-Dependent Methyltransferase, Possible Histamine N-Methyltransferase (Tm1293) From Thermotoga Maritima At 2.20 A Resolution [Taxonomy]
    • gi|52696211|pdb|1VLM|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferase, Possible Histamine N-Methyltransferase (Tm1293) From Thermotoga Maritima At 2.20 A Resolution [Taxonomy]
    • gi|78101440|pdb|2AS0|B_154:332 Chain B, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna Methyltransferase [Taxonomy]
    • gi|78101439|pdb|2AS0|A Chain A, Crystal Structure Of Ph1915 (Apc 5817): A Hypothetical Rna Methyltransferase [Taxonomy]
    • gi|94384784|ref|XP_991093.1|_676:831 PREDICTED: similar to nuclear receptor coactivator 6 interacting protein [Mus musculus]
    • gi|82916707|ref|XP_282816.5| PREDICTED: similar to nuclear receptor coactivator 6 interacting protein [Mus musculus]
    • gi|68178243|ref|ZP_00551372.1|_5:181 methyltransferase, putative [Desulfuromonas acetoxidans DSM 684]
    • gi|67981672|gb|EAM71097.1| methyltransferase, putative [Desulfuromonas acetoxidans DSM 684]
    • gi|50749368|ref|XP_421605.1|_54:258 PREDICTED: similar to catechol-O-methyltransferase domain containing 1 [Gallus gallus]