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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:

    • T0355 NESG:AtR60, Agrobacterium tumefaciens, 288 res
    • gi|56554465|pdb|1XC4|B_18:267 Chain B, Crystal Structure Of Wild-Type Tryptophan Synthase Alpha- Subunits From Escherichia Coli [Taxonomy]
    • gi|56554464|pdb|1XC4|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Alpha- Subunits From Escherichia Coli [Taxonomy]
    • gi|56554469|pdb|1XCF|B_18:267 Chain B, Crystal Structure Of P28lY173F TRYPTOPHAN SYNTHASE ALPHA- Subunits From Escherichia Coli [Taxonomy]
    • gi|56554468|pdb|1XCF|A Chain A, Crystal Structure Of P28lY173F TRYPTOPHAN SYNTHASE ALPHA- Subunits From Escherichia Coli [Taxonomy]
    • gi|16765071|ref|NP_460686.1|_18:265 tryptophan synthase subunit alpha [Salmonella typhimurium LT2]
    • gi|16420257|gb|AAL20645.1| tryptophan synthase, alpha protein [Salmonella typhimurium LT2]
    • gi|47940|emb|CAA24666.1| unnamed protein product [Salmonella typhimurium]
    • gi|136265|sp|P00929|TRPA_SALTY Tryptophan synthase alpha chain [Taxonomy]
    • gi|85543872|pdb|1TJP|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With 1-[(2-Hydroxylphenyl)amino]3- Glycerolphosphate [Taxonomy]
    • gi|6980600|pdb|1C8V|A Chain A, Crystal Structure Of The Complex Of Bacterial Tryptophan Synthase With The Transition State Analogue Inhibitor 4-(2- Hydroxyphenylthio)-Butylphosphonic Acid [Taxonomy]
    • gi|38492419|pdb|1KFJ|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With L-Serine [Taxonomy]
    • gi|22218916|pdb|1K7F|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With N-[1h-Indol-3-Yl-Acetyl]valine Acid [Taxonomy]
    • gi|22218914|pdb|1K7E|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With N-[1h-Indol-3-Yl-Acetyl]glycine Acid [Taxonomy]
    • gi|21730441|pdb|1K8Z|A Chain A, Crystal Structure Of The Tryptophan Synthase Beta-Ser178pro Mutant Complexed With N-[1h-Indol-3-Yl-Acetyl]glycine Acid [Taxonomy]
    • gi|21730439|pdb|1K8Y|A Chain A, Crystal Structure Of The Tryptophan Synthase Beta-Ser178pro Mutant Complexed With D,L-Alpha-Glycerol-3-Phosphate [Taxonomy]
    • gi|21730424|pdb|1K7X|A Chain A, Crystal Structure Of The Beta-Ser178pro Mutant Of Tryptophan Synthase [Taxonomy]
    • gi|21730418|pdb|1K3U|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With N-[1h-Indol-3-Yl-Acetyl]aspartic Acid [Taxonomy]
    • gi|4699723|pdb|1BKS|A Chain A, Tryptophan Synthase (E.C.4.2.1.20) From Salmonella Typhimurium [Taxonomy]
    • gi|13096580|pdb|1FUY|A Chain A, Crystal Structure Of Betaa169lBETAC170W DOUBLE MUTANT OF Tryptophan Synthase Complexed With 5-Fluoro-Indole-Propanol Phosphate [Taxonomy]
    • gi|11513799|pdb|1QOQ|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With Indole Glycerol Phosphate [Taxonomy]
    • gi|6730206|pdb|1CX9|A Chain A, Crystal Structure Of The Complex Of Bacterial Tryptophan Synthase With The Transition State Analogue Inhibitor 4-(2- Aminophenylthio)-Butylphosphonic Acid [Taxonomy]
    • gi|6980564|pdb|1C29|A Chain A, Crystal Structure Of The Complex Of Bacterial Tryptophan Synthase With The Transition State Analogue Inhibitor 4-(2- Hydroxyphenylthio)-1-Butenylphosphonic Acid [Taxonomy]
    • gi|6730203|pdb|1CW2|A Chain A, Crystal Structure Of The Complex Of Bacterial Tryptophan Synthase With The Transition State Analogue Inhibitor 4-(2- Hydroxyphenylsulfinyl)-Butylphosphonic Acid [Taxonomy]
    • gi|6730159|pdb|1C9D|A Chain A, Crystal Structure Of The Complex Of Bacterial Tryptophan Synthase With The Transition State Analogue Inhibitor 4-(2- Hydroxy-4-Fluorophenylthio)-Butylphosphonic Acid [Taxonomy]
    • gi|4699619|pdb|2WSY|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase [Taxonomy]
    • gi|4699590|pdb|1A5S|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With 5-Fluoroindole Propanol Phosphate And L-Ser Bound As Amino Acrylate To The Beta Site [Taxonomy]
    • gi|4699587|pdb|1A50|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With 5-Fluoroindole Propanol Phosphate [Taxonomy]
    • gi|1431671|pdb|1UBS|A Chain A, Tryptophan Synthase (E.C.4.2.1.20) With A Mutation Of Lys 87 ->thr In The B Subunit And In The Presence Of Ligand L-Serine [Taxonomy]
    • gi|1421254|pdb|1TTQ|A Chain A, Tryptophan Synthase (E.C.4.2.1.20) In The Presence Of Potassium At Room Temperature [Taxonomy]
    • gi|1421252|pdb|1TTP|A Chain A, Tryptophan Synthase (E.C.4.2.1.20) In The Presence Of Cesium, Room Temperature [Taxonomy]
    • gi|2098381|pdb|2TYS|A Chain A, Crystal Structures Of Mutant (Betak87t) Tryptophan Synthase Alpha2 Beta2 Complex With Ligands Bound To The Active Sites Of The Alpha And Beta Subunits Reveal Ligand-Induced Conformational Changes [Taxonomy]
    • gi|2098383|pdb|2TRS|A Chain A, Crystal Structures Of Mutant (Betak87t) Tryptophan Synthase Alpha2 Beta2 Complex With Ligands Bound To The Active Sites Of The Alpha And Beta Subunits Reveal Ligand-Induced Conformational Changes [Taxonomy]
    • gi|154386|gb|AAA27235.1| trpa [Taxonomy]
    • gi|109156910|pdb|1WBJ|A_18:265 Chain A, Wildtype Tryptophan Synthase Complexed With Glycerol Phosphate [Taxonomy]
    • gi|27573695|pdb|1K8X|A Chain A, Crystal Structure Of Alphat183v Mutant Of Tryptophan Synthase From Salmonella Typhimurium [Taxonomy]
    • gi|11513797|pdb|1QOP|A Chain A, Crystal Structure Of Wild-Type Tryptophan Synthase Complexed With Indole Propanol Phosphate [Taxonomy]
    • gi|3659998|pdb|1BEU|A_18:265 Chain A, Trp Synthase (D60n-Ipp-Ser) With K+ [Taxonomy]
    • gi|3212367|pdb|1A5B|A Chain A, Cryo-Crystallography Of A True Substrate, Indole-3-Glycerol Phosphate, Bound To A Mutant (Alpha D60n) Tryptophan Synthase Alpha2beta2 Complex Reveals The Correct Orientation Of Active Site Alpha Glu 49 [Taxonomy]
    • gi|3212365|pdb|1A5A|A Chain A, Cryo-Crystallography Of A True Substrate, Indole-3-Glycerol Phosphate, Bound To A Mutant (Alphad60n) Tryptophan Synthase Alpha2beta2 Complex Reveals The Correct Orientation Of Active Site Alpha Glu 49 [Taxonomy]
    • gi|2098385|pdb|2TSY|A_18:259 Chain A, Crystal Structures Of Mutant (Betak87t) Tryptophan Synthase Alpha2 Beta2 Complex With Ligands Bound To The Active Sites Of The Alpha And Beta Subunits Reveal Ligand-Induced Conformational Changes [Taxonomy]
    • gi|38492421|pdb|1KFK|A_18:265 Chain A, Crystal Structure Of Tryptophan Synthase From Salmonella Typhimurium [Taxonomy]
    • gi|28373459|pdb|1KFB|A Chain A, Crystal Structure Of Alphat183v Mutant Of Tryptophan Synthase From Salmonella Typhimurium With Indole Glycerol Phosphate [Taxonomy]
    • gi|28373463|pdb|1KFE|A_18:265 Chain A, Crystal Structure Of Alphat183v Mutant Of Tryptophan Synthase From Salmonella Typhimurium With L-Ser Bound To The Beta Site [Taxonomy]
    • gi|28373461|pdb|1KFC|A Chain A, Crystal Structure Of Alphat183v Mutant Of Tryptophan Synthase From Salmonella Typhimurium With Indole Propanol Phosphate [Taxonomy]
    • gi|58176565|pdb|1RD5|B_19:262 Chain B, Crystal Structure Of Tryptophan Synthase Alpha Chain Homolog Bx1: A Member Of The Chemical Plant Defense System [Taxonomy]
    • gi|58176564|pdb|1RD5|A Chain A, Crystal Structure Of Tryptophan Synthase Alpha Chain Homolog Bx1: A Member Of The Chemical Plant Defense System [Taxonomy]
    • gi|75765256|pdb|1TJR|B_18:260 Chain B, Crystal Structure Of Wild-Type Bx1 Complexed With A Sulfate Ion [Taxonomy]
    • gi|75765255|pdb|1TJR|A Chain A, Crystal Structure Of Wild-Type Bx1 Complexed With A Sulfate Ion [Taxonomy]
    • gi|18893868|gb|AAL81829.1|_1:245 tryptophan synthetase alpha subunit [Pyrococcus furiosus DSM 3638]
    • gi|24638311|sp|Q8U094|TRPA_PYRFU Tryptophan synthase alpha chain [Taxonomy]
    • gi|22775325|dbj|BAC11856.1| tryptophan synthase alpha subunit [Pyrococcus furiosus]
    • gi|73535412|pdb|1WDW|K Chain K, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|73535410|pdb|1WDW|I Chain I, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|73535408|pdb|1WDW|G Chain G, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|73535406|pdb|1WDW|E Chain E, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|73535404|pdb|1WDW|C Chain C, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|73535402|pdb|1WDW|A Chain A, Structural Basis Of Mutual Activation Of The Tryptophan Synthase A2b2 Complex From A Hyperthermophile, Pyrococcus Furiosus [Taxonomy]
    • gi|18978077|ref|NP_579434.1| tryptophan synthase subunit alpha [Pyrococcus furiosus DSM 3638]
    • gi|12084525|pdb|1GEQ|B Chain B, Entropic Stabilization Of The Tryptophan Synthase A-Subunit From A Hyperthermophile, Pyrococcus Furiosus: X-Ray Analysis And Calorimetry [Taxonomy]
    • gi|12084524|pdb|1GEQ|A Chain A, Entropic Stabilization Of The Tryptophan Synthase A-Subunit From A Hyperthermophile, Pyrococcus Furiosus: X-Ray Analysis And Calorimetry [Taxonomy]
    • gi|68207262|ref|ZP_00559430.1|_14:280 Tryptophan synthase, alpha chain [Desulfitobacterium hafniense DCB-2]
    • gi|68168873|gb|EAM96791.1| Tryptophan synthase, alpha chain [Desulfitobacterium hafniense DCB-2]
    • gi|295402|gb|AAA27509.1|_17:267 tryptophan synthetase A (gtg start codon; EC 4.2.1.20) [Taxonomy]
    • gi|60392374|sp|Q6F799|HIS6_ACIAD_7:229 Imidazole glycerol phosphate synthase subunit hisF (IGP synthase cyclase subunit) (IGP synthase subunit hisF) (ImGP synthase subunit hisF) (IGPS subunit hisF) [Taxonomy]
    • gi|17547665|ref|NP_521067.1|_18:233 imidazole glycerol phosphate synthase subunit HisF [Ralstonia solanacearum GMI1000]
    • gi|17429969|emb|CAD16653.1| probable imidazole glycerol phosphate synthase subunit hisf (igpsynthase cyclase subunit) (igp synthase subunit hisf) (imgp synthase subunit hisf) (igps subunit hisf) protein [Ralstonia solanacearum]
    • gi|20454963|sp|Q8XV85|HIS6_RALSO Imidazole glycerol phosphate synthase subunit hisF (IGP synthase cyclase subunit) (IGP synthase subunit hisF) (ImGP synthase subunit hisF) (IGPS subunit hisF) [Taxonomy]
    • gi|3913849|sp|O27398|HIS6_METTH_5:266 Imidazole glycerol phosphate synthase subunit hisF (IGP synthase cyclase subunit) (IGP synthase subunit hisF) (ImGP synthase subunit hisF) (IGPS subunit hisF) [Taxonomy]
    • gi|68209016|ref|ZP_00561088.1|_26:229 Histidine biosynthesis protein HisF [Desulfitobacterium hafniense DCB-2]
    • gi|68167100|gb|EAM95114.1| Histidine biosynthesis protein HisF [Desulfitobacterium hafniense DCB-2]
    • gi|13096504|pdb|1EP3|A_37:295 Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate Dehydrogenase B. Data Collected Under Cryogenic Conditions. [Taxonomy]
    • gi|13096502|pdb|1EP2|A Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate Dehydrogenase B Complexed With Orotate [Taxonomy]
    • gi|13096500|pdb|1EP1|A Chain A, Crystal Structure Of Lactococcus Lactis Dihydroorotate Dehydrogenase B [Taxonomy]
    • gi|62650571|ref|XP_345655.2|_217:447 PREDICTED: similar to protein similar to E.coli yhdg and R. capsulatus nifR3 [Rattus norvegicus]
    • gi|88192881|pdb|2F6X|B_9:228 Chain B, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl Phosphate Synthase Complexed With Sn-G1p And Mpd [Taxonomy]
    • gi|88192880|pdb|2F6X|A Chain A, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl Phosphate Synthase Complexed With Sn-G1p And Mpd [Taxonomy]
    • gi|88192879|pdb|2F6U|B Chain B, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl Phosphate Synthase Complexed With Citrate [Taxonomy]
    • gi|88192878|pdb|2F6U|A Chain A, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl Phosphate Synthase Complexed With Citrate [Taxonomy]
    • gi|85106831|ref|XP_962257.1|_32:269 hypothetical protein ( (AF309689) Snz-type pyridoxine vitamin B6 biosynthetic protein SNZ1 [Neurospora crassa OR74A] ) [Taxonomy]
    • gi|12802367|gb|AAK07850.1| Snz-type pyridoxine vitamin B6 biosynthetic protein SNZ1 [Neurospora crassa]
    • gi|45477163|sp|Q9C1K6|PDX1_NEUCR Probable pyridoxin biosynthesis protein pdx-1 [Taxonomy]
    • gi|28923858|gb|EAA33021.1| hypothetical protein ( (AF309689) Snz-type pyridoxine vitamin B6 biosynthetic protein SNZ1 [Neurospora crassa] ) [Taxonomy]
    • gi|123147|sp|P05325|HIS4_METVO_20:240 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) [Taxonomy]
    • gi|150048|gb|AAA72489.1| hisA protein [Taxonomy]
    • gi|41018339|sp|Q893R0|THIE_CLOTE_14:208 Thiamine-phosphate pyrophosphorylase (TMP pyrophosphorylase) (TMP-PPase) (Thiamine-phosphate synthase) [Taxonomy]
    • gi|60392345|sp|Q5UZH1|HIS4_HALMA_32:243 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) [Taxonomy]
    • gi|7388303|sp|O58878|THIE_PYRHO_19:206 Probable thiamine-phosphate pyrophosphorylase (TMP pyrophosphorylase) (TMP-PPase) (Thiamine-phosphate synthase) [Taxonomy]
    • gi|2983722|gb|AAC07284.1|_11:235 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase [Aquifex aeolicus VF5]
    • gi|3913864|sp|O67328|HIS4_AQUAE 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) [Taxonomy]
    • gi|15606512|ref|NP_213892.1| phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase [Aquifex aeolicus VF5]
    • gi|55670886|pdb|1XI3|B_29:214 Chain B, Thiamine Phosphate Pyrophosphorylase From Pyrococcus Furiosus Pfu-1255191-001 [Taxonomy]
    • gi|55670885|pdb|1XI3|A Chain A, Thiamine Phosphate Pyrophosphorylase From Pyrococcus Furiosus Pfu-1255191-001 [Taxonomy]
    • gi|20454994|sp|Q9CC56|HIS4_MYCLE_49:229 Phosphoribosyl isomerase A (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) (N-(5'-phosphoribosyl)anthranilate isomerase) (PRAI) [Taxonomy]
    • gi|60593774|pdb|1VZW|A_50:226 Chain A, Crystal Structure Of The Bifunctional Protein Pria [Taxonomy]
    • gi|21220531|ref|NP_626310.1|_50:226 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase [Streptomyces coelicolor A3(2)]
    • gi|5596795|emb|CAB51442.1| phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase [Streptomyces coelicolor A3(2)]
    • gi|123149|sp|P16250|HIS4_STRCO Phosphoribosyl isomerase A (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) (N-(5'-phosphoribosyl)anthranilate isomerase) (PRAI) [Taxonomy]
    • gi|153301|gb|AAA26760.1| isomerase (hisA) [Taxonomy]
    • gi|29832700|ref|NP_827334.1|_51:242 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase [Streptomyces avermitilis MA-4680]
    • gi|29609820|dbj|BAC73869.1| putative phosphoribosylformimino-5- aminoimidazole carboxamide ribotide isomerase [Streptomyces avermitilis MA-4680]
    • gi|39931479|sp|Q82AA1|HIS4_STRAW Phosphoribosyl isomerase A (1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase) (Phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase) (N-(5'-phosphoribosyl)anthranilate isomerase) (PRAI) [Taxonomy]