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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:

    • T0326 TM0881, Thermotoga maritima, 304 res
    • gi|99032569|pdb|2GHR|A_2:300 Chain A, Crystal Structure Of (Pc04204a) From Bacillus Cereus Atcc 10987 At 2.40 A Resolution [Taxonomy]
    • gi|173045|gb|AAA35176.1|_12:227 anthranilate synthase Component II:indole-3-glycerol phosphate synthase (TRP3) [Taxonomy]
    • gi|5821983|pdb|1CE8|H_198:377 Chain H, Carbamoyl Phosphate Synthetase From Escherichis Coli With Complexed With The Allosteric Ligand Imp [Taxonomy]
    • gi|5821981|pdb|1CE8|F Chain F, Carbamoyl Phosphate Synthetase From Escherichis Coli With Complexed With The Allosteric Ligand Imp [Taxonomy]
    • gi|5821979|pdb|1CE8|D Chain D, Carbamoyl Phosphate Synthetase From Escherichis Coli With Complexed With The Allosteric Ligand Imp [Taxonomy]
    • gi|5821977|pdb|1CE8|B Chain B, Carbamoyl Phosphate Synthetase From Escherichis Coli With Complexed With The Allosteric Ligand Imp [Taxonomy]
    • gi|4929942|pdb|1BXR|H Chain H, Structure Of Carbamoyl Phosphate Synthetase Complexed With The Atp Analog Amppnp [Taxonomy]
    • gi|4929940|pdb|1BXR|F Chain F, Structure Of Carbamoyl Phosphate Synthetase Complexed With The Atp Analog Amppnp [Taxonomy]
    • gi|4929938|pdb|1BXR|D Chain D, Structure Of Carbamoyl Phosphate Synthetase Complexed With The Atp Analog Amppnp [Taxonomy]
    • gi|4929936|pdb|1BXR|B Chain B, Structure Of Carbamoyl Phosphate Synthetase Complexed With The Atp Analog Amppnp [Taxonomy]
    • gi|3318830|pdb|1JDB|L Chain L, Carbamoyl Phosphate Synthetase From Escherichia Coli [Taxonomy]
    • gi|3318826|pdb|1JDB|I Chain I, Carbamoyl Phosphate Synthetase From Escherichia Coli [Taxonomy]
    • gi|3318822|pdb|1JDB|F Chain F, Carbamoyl Phosphate Synthetase From Escherichia Coli [Taxonomy]
    • gi|3318818|pdb|1JDB|C Chain C, Carbamoyl Phosphate Synthetase From Escherichia Coli [Taxonomy]
    • gi|31563003|sp|Q8FLB1|CARA_ECOL6_198:377 Carbamoyl-phosphate synthase small chain (Carbamoyl-phosphate synthetase glutamine chain) [Taxonomy]
    • gi|55669828|pdb|1T36|H_198:377 Chain H, Crystal Structure Of E. Coli Carbamoyl Phosphate Synthetase Small Subunit Mutant C248d Complexed With Uridine 5'- Monophosphate [Taxonomy]
    • gi|55669826|pdb|1T36|F Chain F, Crystal Structure Of E. Coli Carbamoyl Phosphate Synthetase Small Subunit Mutant C248d Complexed With Uridine 5'- Monophosphate [Taxonomy]
    • gi|55669824|pdb|1T36|D Chain D, Crystal Structure Of E. Coli Carbamoyl Phosphate Synthetase Small Subunit Mutant C248d Complexed With Uridine 5'- Monophosphate [Taxonomy]
    • gi|55669822|pdb|1T36|B Chain B, Crystal Structure Of E. Coli Carbamoyl Phosphate Synthetase Small Subunit Mutant C248d Complexed With Uridine 5'- Monophosphate [Taxonomy]
    • gi|22219408|pdb|1M6V|H_198:377 Chain H, Crystal Structure Of The G359f (Small Subunit) Point Mutant Of Carbamoyl Phosphate Synthetase [Taxonomy]
    • gi|22219406|pdb|1M6V|F Chain F, Crystal Structure Of The G359f (Small Subunit) Point Mutant Of Carbamoyl Phosphate Synthetase [Taxonomy]
    • gi|22219404|pdb|1M6V|D Chain D, Crystal Structure Of The G359f (Small Subunit) Point Mutant Of Carbamoyl Phosphate Synthetase [Taxonomy]
    • gi|22219402|pdb|1M6V|B Chain B, Crystal Structure Of The G359f (Small Subunit) Point Mutant Of Carbamoyl Phosphate Synthetase [Taxonomy]
    • gi|85105517|ref|XP_961982.1|_166:409 CARBAMOYL-PHOSPHATE SYNTHASE, ARGININE-SPECIFIC, SMALL CHAIN, MITOCHONDRIAL PRECURSOR (ARGININE-SPECIFIC CARBAMOYL-PHOSPHATE SYNTHETASE, GLUTAMINE CHAIN) (CPS-A) [Neurospora crassa OR74A]
    • gi|32415920|ref|XP_328438.1| CARBAMOYL-PHOSPHATE SYNTHASE, ARGININE-SPECIFIC, SMALL CHAIN, MITOCHONDRIAL PRECURSOR (ARGININE-SPECIFIC CARBAMOYL-PHOSPHATE SYNTHETASE, GLUTAMINE CHAIN) (CPS-A) [Neurospora crassa OR74A]
    • gi|67476608|sp|P22572|CARA_NEUCR Carbamoyl-phosphate synthase arginine-specific small chain, mitochondrial precursor (Arginine-specific carbamoyl-phosphate synthetase, glutamine chain) (CPS-A) [Taxonomy]
    • gi|28923571|gb|EAA32746.1| CARBAMOYL-PHOSPHATE SYNTHASE, ARGININE-SPECIFIC, SMALL CHAIN, MITOCHONDRIAL PRECURSOR (ARGININE-SPECIFIC CARBAMOYL-PHOSPHATE SYNTHETASE, GLUTAMINE CHAIN) (CPS-A) [Neurospora crassa]
    • gi|169014|gb|AAA33633.1|_4:197 trifunctional protein with glutamine amidotransferase (TrpG), phosphoribosylanthranilate isomerase (TrpF), and indoleglycerolphosphate synthetase (TrpC) activities [Taxonomy]
    • gi|75765330|pdb|1WL8|A_2:186 Chain A, Crystal Structure Of Ph1346 Protein From Pyrococcus Horikoshii [Taxonomy]
    • gi|18158910|pdb|1KEE|H_198:377 Chain H, Inactivation Of The Amidotransferase Activity Of Carbamoyl Phosphate Synthetase By The Antibiotic Acivicin [Taxonomy]
    • gi|18158908|pdb|1KEE|F Chain F, Inactivation Of The Amidotransferase Activity Of Carbamoyl Phosphate Synthetase By The Antibiotic Acivicin [Taxonomy]
    • gi|18158906|pdb|1KEE|D Chain D, Inactivation Of The Amidotransferase Activity Of Carbamoyl Phosphate Synthetase By The Antibiotic Acivicin [Taxonomy]
    • gi|18158904|pdb|1KEE|B Chain B, Inactivation Of The Amidotransferase Activity Of Carbamoyl Phosphate Synthetase By The Antibiotic Acivicin [Taxonomy]
    • gi|6730194|pdb|1CS0|H Chain H, Crystal Structure Of Carbamoyl Phosphate Synthetase Complexed At Cys269 In The Small Subunit With The Tetrahedral Mimic L-Glutamate Gamma-Semialdehyde [Taxonomy]
    • gi|6730192|pdb|1CS0|F Chain F, Crystal Structure Of Carbamoyl Phosphate Synthetase Complexed At Cys269 In The Small Subunit With The Tetrahedral Mimic L-Glutamate Gamma-Semialdehyde [Taxonomy]
    • gi|6730190|pdb|1CS0|D Chain D, Crystal Structure Of Carbamoyl Phosphate Synthetase Complexed At Cys269 In The Small Subunit With The Tetrahedral Mimic L-Glutamate Gamma-Semialdehyde [Taxonomy]
    • gi|6730188|pdb|1CS0|B Chain B, Crystal Structure Of Carbamoyl Phosphate Synthetase Complexed At Cys269 In The Small Subunit With The Tetrahedral Mimic L-Glutamate Gamma-Semialdehyde [Taxonomy]
    • gi|168865|gb|AAA33609.1|_167:409 arginine-specific carbamoyl phosphate synthetase small subunit [Taxonomy]
    • gi|6730133|pdb|1C3O|H_198:377 Chain H, Crystal Structure Of The Carbamoyl Phosphate Synthetase: Small Subunit Mutant C269s With Bound Glutamine [Taxonomy]
    • gi|6730131|pdb|1C3O|F Chain F, Crystal Structure Of The Carbamoyl Phosphate Synthetase: Small Subunit Mutant C269s With Bound Glutamine [Taxonomy]
    • gi|6730129|pdb|1C3O|D Chain D, Crystal Structure Of The Carbamoyl Phosphate Synthetase: Small Subunit Mutant C269s With Bound Glutamine [Taxonomy]
    • gi|6730127|pdb|1C3O|B Chain B, Crystal Structure Of The Carbamoyl Phosphate Synthetase: Small Subunit Mutant C269s With Bound Glutamine [Taxonomy]
    • gi|6730123|pdb|1C30|H Chain H, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small Subunit Mutation C269s [Taxonomy]
    • gi|6730121|pdb|1C30|F Chain F, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small Subunit Mutation C269s [Taxonomy]
    • gi|6730119|pdb|1C30|D Chain D, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small Subunit Mutation C269s [Taxonomy]
    • gi|6730117|pdb|1C30|B Chain B, Crystal Structure Of Carbamoyl Phosphate Synthetase: Small Subunit Mutation C269s [Taxonomy]
    • gi|21759060|sp|Q9PEC2|CARA_XYLFA_194:365 Carbamoyl-phosphate synthase small chain (Carbamoyl-phosphate synthetase glutamine chain) [Taxonomy]
    • gi|3891754|pdb|1A9X|H_197:376 Chain H, Carbamoyl Phosphate Synthetase: Caught In The Act Of Glutamine Hydrolysis [Taxonomy]
    • gi|3891752|pdb|1A9X|F Chain F, Carbamoyl Phosphate Synthetase: Caught In The Act Of Glutamine Hydrolysis [Taxonomy]
    • gi|3891750|pdb|1A9X|D Chain D, Carbamoyl Phosphate Synthetase: Caught In The Act Of Glutamine Hydrolysis [Taxonomy]
    • gi|3891748|pdb|1A9X|B Chain B, Carbamoyl Phosphate Synthetase: Caught In The Act Of Glutamine Hydrolysis [Taxonomy]
    • gi|191333|gb|AAA37062.1|_26:197 carbamoyl-phosphate synthetase (E.C.6.3.5.5) [Taxonomy]
    • gi|46136077|ref|XP_389730.1|_169:412 CARA_TRIVE Carbamoyl-phosphate synthase, arginine-specific, small chain, mitochondrial precursor (Arginine-specific carbamoyl-phosphate synthetase, glutamine chain) (CPS-A) [Gibberella zeae PH-1]
    • gi|42554268|gb|EAA77111.1| CARA_TRIVE Carbamoyl-phosphate synthase, arginine-specific, small chain, mitochondrial precursor (Arginine-specific carbamoyl-phosphate synthetase, glutamine chain) (CPS-A) [Gibberella zeae PH-1]
    • gi|51093867|ref|NP_076014.1|_181:352 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Mus musculus]
    • gi|58615305|gb|AAW80263.1|_178:363 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Danio rerio]
    • gi|56207582|emb|CAI20956.1|_182:367 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Danio rerio]
    • gi|53854121|gb|AAU95538.1|_178:363 carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Danio rerio]
    • gi|57770415|ref|NP_001009884.1| carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase [Danio rerio]
    • gi|3121846|sp|P87183|CARA_TRIVE_193:431 Carbamoyl-phosphate synthase arginine-specific small chain, mitochondrial precursor (Arginine-specific carbamoyl-phosphate synthetase, glutamine chain) (CPS-A) [Taxonomy]
    • gi|2114491|gb|AAB58299.1| carbamoyl phosphate synthetase, small subunit [Hypocrea virens]
    • gi|21759014|sp|O50235|CARA_ZYMMO_188:362 Carbamoyl-phosphate synthase small chain (Carbamoyl-phosphate synthetase glutamine chain) [Taxonomy]
    • gi|6323873|ref|NP_013944.1|_9:193 GMP synthase, an enzyme that catalyzes the second step in the biosynthesis of GMP from inosine 5'-phosphate (IMP); transcription is not subject to regulation by guanine but is negatively regulated by nutrient starvation; Gua1p [Saccharomyces cerevisiae]
    • gi|854469|emb|CAA89932.1| Gua1p [Saccharomyces cerevisiae]
    • gi|1708073|sp|P38625|GUAA_YEAST GMP synthase [glutamine-hydrolyzing] (Glutamine amidotransferase) (GMP synthetase) [Taxonomy]
    • gi|584877|sp|P38099|CARA_PSEST_202:381 Carbamoyl-phosphate synthase small chain (Carbamoyl-phosphate synthetase glutamine chain) [Taxonomy]
    • gi|451655|gb|AAA19049.1| carbamoyl phosphate synthetase light subunit [Taxonomy]
    • gi|21759020|sp|P74587|CARA_SYNY3_188:377 Carbamoyl-phosphate synthase small chain (Carbamoyl-phosphate synthetase glutamine chain) [Taxonomy]