Score = 129 (50.5 bits), Expect = 2.1e-07, P = 2.1e-07
Identities = 28/47 (59%), Positives = 34/47 (72%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREAL 79
G GVVT+R HV +VVTE GIA L GK++R+RA LI IA P R+ L
Sbjct: 372 GGGVVTSRGHVAFVVTEFGIASLQGKSIRERALELIRIAHPKFRDKL 418
Score = 129 (50.5 bits), Expect = 2.1e-07, P = 2.1e-07
Identities = 28/47 (59%), Positives = 34/47 (72%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREAL 79
G GVVT+R HV +VVTE GIA L GK++R+RA LI IA P R+ L
Sbjct: 372 GGGVVTSRGHVAFVVTEFGIASLQGKSIRERALELIRIAHPKFRDKL 418
Parameters:
V=100
filter=SEG
E=0.001
ctxfactor=1.00
Query ----- As Used ----- ----- Computed ----
Frame MatID Matrix name Lambda K H Lambda K H
+0 0 BLOSUM62 0.329 0.139 0.432 same same same
Q=9,R=2 0.244 0.0300 0.180 n/a n/a n/a
Query
Frame MatID Length Eff.Length E S W T X E2 S2
+0 0 93 93 0.00091 102 3 11 22 0.40 29
29 0.41 31
Statistics:
Database: /share/blast/go-seqdb.fasta
Title: go_20130330-seqdb.fasta
Posted: 5:47:42 AM PDT Apr 1, 2013
Created: 5:47:42 AM PDT Apr 1, 2013
Format: XDF-1
# of letters in database: 169,044,731
# of sequences in database: 368,745
# of database sequences satisfying E: 8
No. of states in DFA: 495 (53 KB)
Total size of DFA: 98 KB (2071 KB)
Time to generate neighborhood: 0.00u 0.00s 0.00t Elapsed: 00:00:00
No. of threads or processors used: 24
Search cpu time: 9.40u 0.08s 9.48t Elapsed: 00:00:02
Total cpu time: 9.40u 0.08s 9.48t Elapsed: 00:00:02
Start: Thu Aug 15 11:06:00 2013 End: Thu Aug 15 11:06:02 2013
Score = 94.4 bits (236), Expect = 2e-26
Identities = 30/49 (61%), Positives = 36/49 (73%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEK 81
GA V T R V YVVTE+GIA L GK+LR+RA ALI+IA PD R+ L +
Sbjct: 104 GAHVTTPRHDVDYVVTEYGIADLRGKSLRERARALISIAHPDFRDELLE 152
This family contains several enzymes which take part in pathways involving acetyl-CoA. Acetyl-CoA hydrolase EC:3.1.2.1 catalyzes the formation of acetate from acetyl-CoA, CoA transferase (CAT1) EC:2.8.3.- produces succinyl-CoA, and acetate-CoA transferase EC:2.8.3.8 utilises acyl-CoA and acetate to form acetyl-CoA. Length = 152
>gnl|CDD|223504 COG0427, ACH1, Acetyl-CoA hydrolase [Energy production and conversion]
Score = 58.3 bits (141), Expect = 1e-11
Identities = 27/51 (52%), Positives = 34/51 (66%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAA 83
G+ V TRA+ HYVVTE+G L G + Q+A ALI+IA PD R+ L K A
Sbjct: 384 GSIVTDTRANTHYVVTEYGKVNLKGLSTWQKAEALISIAHPDFRDELIKEA 434
This enzyme represents one of at least two mechanisms for reclaiming CoA from butyryl-CoA at the end of butyrate biosynthesis (an important process performed by some colonic bacteria), namely transfer of CoA to acetate. An alternate mechanism transfers the butyrate onto inorganic phosphate, after which butyrate kinase transfers the phosphate onto ADP, creating ATP [Energy metabolism, Fermentation]. Length = 445
>gnl|CDD|234217 TIGR03458, YgfH_subfam, succinate CoA transferase
Score = 42.6 bits (101), Expect = 4e-06
Identities = 21/45 (46%), Positives = 29/45 (64%), Gaps = 2/45 (4%)
Query: 43 VHYVVTEHGIAFLFGKTLRQRAHALI-NIAPPDHREALEKAAFER 86
V +VTE G+A L G + R+RA A+I N A PD+R+ L +ER
Sbjct: 415 VMVIVTEQGLADLRGLSPRERARAIIDNCAHPDYRDLLR-DYYER 458
This family of CoA transferases includes enzymes catalyzing at least two related but distinct activities. The E. coli YgfH protein has been characterized as a propionyl-CoA:succinate CoA transferase where it appears to be involved in a pathway for the decarboxylation of succinate to propionate. The Clostridium kluyveri CAT1 protein has been characterized as a acetyl-CoA:succinate CoA transferase and is believed to be involved in anaerobic succinate degradation. The propionate:succinate transferase activity has been reported in the propionic acid fermentation of propionibacterium species where it is distinct from the coupled activities of distinct nucleotide-triphosphate dependent succinate and propionate/acetate CoA transferases (as inferred from activity in the absence of NTPs). The family represented by this model includes a member from Propionibacterium acnes KPA171202 which is likely to be responsible for this activity. A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins modeled by This model, possibly erroneously. Length = 485
A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins detected by this model, possibly erroneously.
>COG0427 ACH1 Acetyl-CoA hydrolase [Energy production and conversion]
This model describes malonate decarboxylase alpha subunit, from both the water-soluble form as found in Klebsiella pneumoniae and the form couple to sodium ion pumping in Malonomonas rubra. Malonate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases. Essentially, it couples the energy derived from decarboxylation of a carboxylic acid substrate to move Na+ ion across the bilayer. Functional malonate decarboylase is a multi subunit protein. The alpha subunit enzymatically performs the transfer of malonate (substrate) to an acyl carrier protein subunit for subsequent decarboxylation, hence the name: acetyl-S-acyl carrier protein:malonate carrier protein-SH transferase.
This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
>TIGR02428 pcaJ_scoB_fam 3-oxoacid CoA-transferase, B subunit
Various members of this family are characterized as the B subunits of succinyl-CoA:3-ketoacid-CoA transferase (EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase (EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase (EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase (EC 2.8.3.9). This represents a very distinct clade with strong sequence conservation within the larger family defined by Pfam model pfam01144. The A subunit represents a different clade in pfam01144.
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2
8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
>COG3051 CitF Citrate lyase, alpha subunit [Energy production and conversion]
>PF11997 DUF3492: Domain of unknown function (DUF3492); InterPro: IPR022622 This domain is functionally uncharacterised and is found in bacteria, archaea and eukaryotes
It is typically between 259 to 282 amino acids in length. This region is found N-terminal PF00534 from PFAM. There are two conserved sequence motifs: GGVS and EHGIY.
>COG4195 Phage-related replication protein [General function prediction only]
>PF04512 Baculo_PEP_N: Baculovirus polyhedron envelope protein, PEP, N terminus; InterPro: IPR007600 Polyhedra are large crystalline occlusion bodies containing nucleopolyhedrovirus virions, and surrounded by an electron-dense structure called the polyhedron envelope or polyhedron calyx
The polyhedron envelope (associated) protein PEP is thought to be an integral part of the polyhedron envelope. PEP is concentrated at the surface of polyhedra, and is thought to be important for the proper formation of the periphery of polyhedra. It is thought that PEP may stabilise polyhedra and protect them from fusion or aggregation [].; GO: 0005198 structural molecule activity, 0019028 viral capsid, 0019031 viral envelope
Crystal Structure Of Ripa From Yersinia Pestis Leng
3e-04
>pdb|2OAS|A Chain A, Crystal Structure Of 4-Hydroxybutyrate Coenzyme A Transferase (Atoa) In Complex With Coa From Shewanella Oneidensis, Northeast Structural Genomics Target Sor119. Length = 436
Score = 63.5 bits (153), Expect = 3e-11, Method: Composition-based stats.
Identities = 34/55 (61%), Positives = 37/55 (67%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERL 87
GA V T R V YVVTE+GIA L GK+LRQRA ALI IA PD RE L K +R
Sbjct: 379 GAAVTTLRNEVDYVVTEYGIAQLKGKSLRQRAEALIAIAHPDFREELTKHLRKRF 433
Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/57 (56%), Positives = 37/57 (64%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERLKV 89
GA V T R V YVVTE+G+A L G TLRQRA AL IA PD R ALE+ R ++
Sbjct: 376 GACVTTGRNEVDYVVTEYGVARLRGATLRQRAEALTAIAHPDFRPALEEEIRRRFEL 432
Score = 97.4 bits (243), Expect = 8e-26
Identities = 34/55 (61%), Positives = 37/55 (67%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERL 87
GA V T R V YVVTE+GIA L GK+LRQRA ALI IA PD RE L K +R
Sbjct: 379 GAAVTTLRNEVDYVVTEYGIAQLKGKSLRQRAEALIAIAHPDFREELTKHLRKRF 433
Score = 89.8 bits (223), Expect = 5e-23
Identities = 32/57 (56%), Positives = 37/57 (64%)
Query: 33 GAGVVTTRAHVHYVVTEHGIAFLFGKTLRQRAHALINIAPPDHREALEKAAFERLKV 89
GA V T R V YVVTE+G+A L G TLRQRA AL IA PD R ALE+ R ++
Sbjct: 376 GACVTTGRNEVDYVVTEYGVARLRGATLRQRAEALTAIAHPDFRPALEEEIRRRFEL 432
>2g39_A Acetyl-COA hydrolase; coenzyme A transferase, structural G PSI, protein structure initiative, midwest center for struc genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: c.124.1.2 c.124.1.2
>3rrl_B Succinyl-COA:3-ketoacid-coenzyme A transferase SU; MCSG,PSI-biology, structural genomics, midwest center for ST genomics; 2.29A {Helicobacter pylori} PDB: 3cdk_B
