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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:

    • T0286 CelX, Clostridium thermocellum, 205 res
    • gi|58176976|pdb|1V2G|A_3:184 Chain A, The L109p Mutant Of E. Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIPASE L1 (TAP) IN COMPLEXED WITH OCTANOIC Acid [Taxonomy]
    • gi|33357165|pdb|1JRL|A Chain A, Crystal Structure Of E. Coli Lysophospholiase L1ACYL-Coa Thioesterase IPROTEASE I L109P MUTANT [Taxonomy]
    • gi|62738069|pdb|1U8U|A_3:184 Chain A, E. Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1 IN Complexed With Octanoic Acid [Taxonomy]
    • gi|33357066|pdb|1IVN|A Chain A, E.Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIASE L1 [Taxonomy]
    • gi|33357074|pdb|1J00|A_3:184 Chain A, E. Coli Thioesterase IPROTEASE ILYSOPHOSPHOLIPASE L1 IN Complexed With Diethyl Phosphono Moiety [Taxonomy]
    • gi|14043830|gb|AAH07863.1|_34:222 Platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit 29kDa [Homo sapiens]
    • gi|12804315|gb|AAH03016.1| Platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit 29kDa [Homo sapiens]
    • gi|47115189|emb|CAG28554.1| PAFAH1B3 [Homo sapiens]
    • gi|4210502|gb|AAD11989.1| PA1G_HUMAN; PAF ACETYLHYDROLASE 29 KD SUBUNIT; PAF-AH 29 KD SUBUNIT; PAF-AH GAMMA SUBUNIT [Homo sapiens]
    • gi|4505587|ref|NP_002564.1| platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit 29kDa [Homo sapiens]
    • gi|3024344|sp|Q15102|PA1B3_HUMAN Platelet-activating factor acetylhydrolase IB gamma subunit (PAF acetylhydrolase 29 kDa subunit) (PAF-AH 29 kDa subunit) (PAF-AH gamma subunit) (PAFAH gamma subunit) [Taxonomy]
    • gi|1122219|dbj|BAA09706.1| platelet activating factor acetylhydrolase IB gamma-subunit [Homo sapiens]
    • gi|8569341|pdb|1ES9|A_34:222 Chain A, X-Ray Crystal Structure Of R22k Mutant Of The Mammalian Brain Platelet-Activating Factor Acetylhydrolases (Paf-Ah) [Taxonomy]
    • gi|27807201|ref|NP_777090.1|_34:222 platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit (29kD) [Bos taurus]
    • gi|3024346|sp|Q29460|PA1B3_BOVIN Platelet-activating factor acetylhydrolase IB gamma subunit (PAF acetylhydrolase 29 kDa subunit) (PAF-AH 29 kDa subunit) (PAF-AH gamma subunit) (PAFAH gamma subunit) [Taxonomy]
    • gi|17943423|pdb|1FXW|A Chain A, Crystal Structure Of The Recombinant Alpha1ALPHA2 Catalytic Heterodimer Of Bovine Brain Platelet-Activating Factor Acetylhydrolase Ib. [Taxonomy]
    • gi|2624421|pdb|1WAB| Platelet-Activating Factor Acetylhydrolase [Taxonomy]
    • gi|556479|dbj|BAA06455.1| PAF acetylhydrolase 29 kDa subunit [Bos taurus]
    • gi|5107530|pdb|1BWR|_34:222 Probing The Substrate Specificity Of The Intracellular Brain Platelet-Activating Factor Acetylhydrolase [Taxonomy]
    • gi|16758470|ref|NP_446106.1|_35:223 platelet-activating factor acetylhydrolase, isoform 1b, alpha1 subunit [Rattus norvegicus]
    • gi|2501857|gb|AAC27973.1| platelet-activating factor acetylhydrolase alpha 1 subunit [Rattus norvegicus]
    • gi|6093641|sp|O35263|PA1B3_RAT Platelet-activating factor acetylhydrolase IB gamma subunit (PAF acetylhydrolase 29 kDa subunit) (PAF-AH 29 kDa subunit) (PAF-AH gamma subunit) (PAFAH gamma subunit) (Platelet-activating factor acetylhydrolase alpha 1 subunit) (PAF-AH alpha 1) [Taxonomy]
    • gi|5107529|pdb|1BWQ|_34:222 Probing The Substrate Specificity Of The Intracellular Brain Platelet-Activating Factor Acetylhydrolase [Taxonomy]
    • gi|57036489|ref|XP_533656.1|_34:222 PREDICTED: similar to Platelet-activating factor acetylhydrolase IB gamma subunit (PAF acetylhydrolase 29 kDa subunit) (PAF-AH 29 kDa subunit) (PAF-AH gamma subunit) (PAFAH gamma subunit) isoform 1 [Canis familiaris]
    • gi|73947425|ref|XP_852686.1| PREDICTED: similar to Platelet-activating factor acetylhydrolase IB gamma subunit (PAF acetylhydrolase 29 kDa subunit) (PAF-AH 29 kDa subunit) (PAF-AH gamma subunit) (PAFAH gamma subunit) isoform 2 [Canis familiaris]
    • gi|73955102|ref|XP_536562.2|_397:585 PREDICTED: similar to platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa [Canis familiaris]
    • gi|5107528|pdb|1BWP|_34:222 Probing The Substrate Specificity Of The Intracellular Brain Platelet-Activating Factor Acetylhydrolase [Taxonomy]
    • gi|11693154|ref|NP_071782.1|_35:223 platelet-activating factor acetylhydrolase alpha 2 subunit [Rattus norvegicus]
    • gi|40254624|ref|NP_032801.2| platelet-activating factor acetylhydrolase, isoform 1b, alpha2 subunit [Mus musculus]
    • gi|74142460|dbj|BAE31983.1| unnamed protein product [Mus musculus]
    • gi|12805159|gb|AAH02037.1| Platelet-activating factor acetylhydrolase, isoform 1b, alpha2 subunit [Mus musculus]
    • gi|2501859|gb|AAC27974.1| platelet-activating factor acetylhydrolase alpha 2 subunit [Rattus norvegicus]
    • gi|51859418|gb|AAH81714.1| Platelet-activating factor acetylhydrolase alpha 2 subunit [Rattus norvegicus]
    • gi|6093640|sp|O35264|PA1B2_RAT Platelet-activating factor acetylhydrolase IB beta subunit (PAF acetylhydrolase 30 kDa subunit) (PAF-AH 30 kDa subunit) (PAF-AH beta subunit) (PAFAH beta subunit) (Platelet-activating factor acetylhydrolase alpha 2 subunit) (PAF-AH alpha 2) [Taxonomy]
    • gi|55637011|ref|XP_508773.1|_159:347 PREDICTED: similar to platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa; Platelet-activating factor acetylhydrolase, isoform Ib, beta subunit; platelet-activating factor acetylhydrolase, isoform Ib, beta subunit (30kD) ... [Pan troglodytes]
    • gi|3024348|sp|Q61206|PA1B2_MOUSE_35:223 Platelet-activating factor acetylhydrolase IB beta subunit (PAF acetylhydrolase 30 kDa subunit) (PAF-AH 30 kDa subunit) (PAF-AH beta subunit) (PAFAH beta subunit) [Taxonomy]
    • gi|1373363|gb|AAC52997.1| platelet-activating factor acetylhydrolase isoform Ib beta subunit [Mus musculus]
    • gi|47169451|pdb|1VJG|A_15:210 Chain A, Crystal Structure Of Putative Lipase From The G-D-S-L Family From Nostoc Sp. At 2.01 A Resolution [Taxonomy]
    • gi|68360812|ref|XP_695554.1|_122:310 PREDICTED: similar to platelet-activating factor acetylhydrolase alpha 2 subunit [Danio rerio]
    • gi|66361373|pdb|1Z8H|D_15:210 Chain D, Crystal Structure Of Putative Lipase From The G-D-S-L Family (17135349) From Nostoc Sp. Pcc 7120 At 2.02 A Resolution [Taxonomy]
    • gi|66361372|pdb|1Z8H|C Chain C, Crystal Structure Of Putative Lipase From The G-D-S-L Family (17135349) From Nostoc Sp. Pcc 7120 At 2.02 A Resolution [Taxonomy]
    • gi|66361371|pdb|1Z8H|B Chain B, Crystal Structure Of Putative Lipase From The G-D-S-L Family (17135349) From Nostoc Sp. Pcc 7120 At 2.02 A Resolution [Taxonomy]
    • gi|66361370|pdb|1Z8H|A Chain A, Crystal Structure Of Putative Lipase From The G-D-S-L Family (17135349) From Nostoc Sp. Pcc 7120 At 2.02 A Resolution [Taxonomy]
    • gi|68353736|ref|XP_707002.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68353734|ref|XP_683427.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|30186156|gb|AAH51609.1|_34:221 Platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit [Danio rerio]
    • gi|68382865|ref|XP_683731.1| PREDICTED: similar to Platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit isoform 1 [Danio rerio]
    • gi|41055008|ref|NP_957352.1| platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit [Danio rerio]
    • gi|68354630|ref|XP_708587.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68354628|ref|XP_686972.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68371050|ref|XP_684820.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68358352|ref|XP_706739.1|_114:286 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68358350|ref|XP_682887.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68364244|ref|XP_686272.1|_41:213 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68357446|ref|XP_698223.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68384552|ref|XP_694266.1|_130:302 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68395038|ref|XP_708529.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68395036|ref|XP_686815.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68434103|ref|XP_706787.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68434100|ref|XP_682990.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68395290|ref|XP_691706.1| PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68393055|ref|XP_706927.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68393052|ref|XP_683256.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68382596|ref|XP_684738.1| PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68374885|ref|XP_709219.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68374882|ref|XP_689037.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68373189|ref|XP_693617.1| PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68373187|ref|XP_708798.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68373184|ref|XP_687597.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68359791|ref|XP_708079.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68359789|ref|XP_685703.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68357096|ref|XP_708915.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68357094|ref|XP_687833.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68356838|ref|XP_708455.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68356836|ref|XP_686557.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|8954046|gb|AAF82220.1|_21:346 Contains similarity to proline-rich protein APG homolog T27E13.4 gi|7488229 from Arabidopsis thaliana BAC T27E13 gb|AC002338. It contains a Lipase/Acylhydrolase with GDSL-like motif PF|00657 [Taxonomy]
    • gi|68393945|ref|XP_697297.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68393904|ref|XP_707627.1| PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68393902|ref|XP_684741.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68365456|ref|XP_706653.1|_114:286 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68365454|ref|XP_682701.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68368162|ref|XP_684557.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68361624|ref|XP_707327.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68361622|ref|XP_684023.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68436851|ref|XP_697653.1|_130:302 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68372872|ref|XP_708215.1|_116:288 PREDICTED: similar to putative nucleic acid binding protein isoform 3 [Danio rerio]
    • gi|68372866|ref|XP_686028.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|68372869|ref|XP_708214.1|_77:249 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68401800|ref|XP_697634.1|_230:402 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|68354774|ref|XP_708068.1|_116:285 PREDICTED: similar to putative nucleic acid binding protein isoform 3 [Danio rerio]
    • gi|68354772|ref|XP_708067.1|_77:246 PREDICTED: similar to putative nucleic acid binding protein isoform 2 [Danio rerio]
    • gi|68354770|ref|XP_685694.1| PREDICTED: similar to putative nucleic acid binding protein isoform 1 [Danio rerio]
    • gi|76633135|ref|XP_884553.1|_111:351 PREDICTED: similar to Protein C20orf81 homolog isoform 3 [Bos taurus]
    • gi|50907961|ref|XP_465469.1|_29:330 putative family II extracellular lipase 3Oryza sativa (japonica cultivar-group)]
    • gi|47497846|dbj|BAD19975.1| putative family II extracellular lipase 3Oryza sativa (japonica cultivar-group)]
    • gi|76633143|ref|XP_872173.1|_111:355 PREDICTED: similar to Protein C20orf81 homolog isoform 2 [Bos taurus]
    • gi|46015246|pdb|1PP4|B_2:213 Chain B, The Crystal Structure Of Rhamnogalacturonan Acetylesterase In Space Group P3121 [Taxonomy]
    • gi|46015245|pdb|1PP4|A Chain A, The Crystal Structure Of Rhamnogalacturonan Acetylesterase In Space Group P3121 [Taxonomy]
    • gi|18158804|pdb|1K7C|A Chain A, Rhamnogalacturonan Acetylesterase With Seven N-Linked Carbohydrate Residues Distributed At Two N-Glycosylation Sites Refined At 1.12 A Resolution [Taxonomy]
    • gi|7766905|pdb|1DEX|A Chain A, Rhamnogalacturonan Acetylesterase From Aspergillus Aculeatus At 1.9 A Resolution [Taxonomy]
    • gi|7766904|pdb|1DEO|A Chain A, Rhamnogalacturonan Acetylesterase From Aspergillus Aculeatus At 1.55 A Resolution With So4 In The Active Site [Taxonomy]
    • gi|68366298|ref|XP_695699.1|_116:268 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|121051|sp|P10480|GCAT_AERHY_21:333 Phosphatidylcholine-sterol acyltransferase precursor (Glycerophospholipid-cholesterol acyltransferase) (GCAT) [Taxonomy]
    • gi|4587535|gb|AAD25766.1|_33:358 Belongs to the PF|00657 Lipase/Acylhydrolase with GDSL-motif family. EST gb|R29935 comes from this gene. [Arabidopsis thaliana]
    • gi|68390521|ref|XP_697624.1|_73:210 PREDICTED: similar to putative nucleic acid binding protein [Danio rerio]
    • gi|1311363|pdb|1ESE|_1:305 Mol_id: 1; Molecule: Esterase; Chain: Null; Heterogen: Diethyl Phosphonate [Taxonomy]
    • gi|1311364|pdb|1ESD| Mol_id: 1; Molecule: Esterase; Chain: Null; Heterogen: Methyl Phosphonate [Taxonomy]
    • gi|1311365|pdb|1ESC| Mol_id: 1; Molecule: Esterase; Chain: Null [Taxonomy]
    • gi|68364096|ref|XP_684974.1|_743:904 PREDICTED: similar to DumPY : shorter than wild-type DPY-19, putative protein, with at least 10 transmembrane domains, of eukaryotic origin (dpy-19) [Danio rerio]