Citrus Sinensis ID: 032537

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------14
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKYKS
cccEEEEEEEcccccccccHHHHHHHHHHHcccccccccccccccccccccccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccccccccc
cccEEEEEEccccccccccHHHHHHHHHHHHEEEcccccccccccccccccEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccHHHcEccc
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAAnkntvpgdvsamvpggirmgtpaltsrgfveedFAKVAYFFDAAVKLTVKIKsetqgtklKDFVATTQSANFQSEIAKRCHDVEEYakqfptigfeKETMKYKS
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHiaankntvpgdvsamVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKsetqgtklKDFVATTQSANFQSEIAKRCHDVEEYAkqfptigfeketmkyks
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKYKS
***WMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIG**********
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKS*T*GTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKY**
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKYKS
MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKYK*
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MKSWMILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMKYKS
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query138 2.2.26 [Sep-21-2011]
P49358517 Serine hydroxymethyltrans N/A no 0.898 0.239 0.879 2e-58
P49357517 Serine hydroxymethyltrans N/A no 0.898 0.239 0.846 2e-56
P50433518 Serine hydroxymethyltrans N/A no 0.898 0.239 0.856 6e-56
Q9SZJ5517 Serine hydroxymethyltrans yes no 0.891 0.237 0.806 8e-53
P34899518 Serine hydroxymethyltrans N/A no 0.884 0.235 0.788 1e-51
Q3SZ20504 Serine hydroxymethyltrans yes no 0.818 0.224 0.491 8e-26
Q60V73511 Serine hydroxymethyltrans N/A no 0.804 0.217 0.504 9e-25
Q7S5N8527 Putative serine hydroxyme N/A no 0.797 0.208 0.471 2e-24
P34896483 Serine hydroxymethyltrans yes no 0.840 0.240 0.470 3e-24
P50432507 Serine hydroxymethyltrans yes no 0.818 0.222 0.495 3e-24
>sp|P49358|GLYN_FLAPR Serine hydroxymethyltransferase 2, mitochondrial OS=Flaveria pringlei PE=2 SV=1 Back     alignment and function desciption
 Score =  223 bits (569), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 113/124 (91%)

Query: 15  QQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYF 74
            +GIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAY 
Sbjct: 394 NKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYL 453

Query: 75  FDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETM 134
           FD AVKL VKIK E QGTKLKDFVA  QS+ FQSEI+K  HDVEEYAKQFPTIGFEKETM
Sbjct: 454 FDLAVKLAVKIKGEAQGTKLKDFVAAMQSSAFQSEISKLRHDVEEYAKQFPTIGFEKETM 513

Query: 135 KYKS 138
           KYK+
Sbjct: 514 KYKN 517
Interconversion of serine and glycine.
Flaveria pringlei (taxid: 4226)
EC: 2EC: .EC: 1EC: .EC: 2EC: .EC: 1
>sp|P49357|GLYM_FLAPR Serine hydroxymethyltransferase 1, mitochondrial OS=Flaveria pringlei PE=2 SV=1 Back     alignment and function description
>sp|P50433|GLYM_SOLTU Serine hydroxymethyltransferase, mitochondrial OS=Solanum tuberosum PE=2 SV=1 Back     alignment and function description
>sp|Q9SZJ5|GLYM_ARATH Serine hydroxymethyltransferase, mitochondrial OS=Arabidopsis thaliana GN=SHM1 PE=1 SV=1 Back     alignment and function description
>sp|P34899|GLYM_PEA Serine hydroxymethyltransferase, mitochondrial OS=Pisum sativum PE=1 SV=1 Back     alignment and function description
>sp|Q3SZ20|GLYM_BOVIN Serine hydroxymethyltransferase, mitochondrial OS=Bos taurus GN=SHMT2 PE=2 SV=1 Back     alignment and function description
>sp|Q60V73|GLYC_CAEBR Serine hydroxymethyltransferase OS=Caenorhabditis briggsae GN=mel-32 PE=3 SV=3 Back     alignment and function description
>sp|Q7S5N8|GLYM_NEUCR Putative serine hydroxymethyltransferase, mitochondrial OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=NCU05805 PE=3 SV=1 Back     alignment and function description
>sp|P34896|GLYC_HUMAN Serine hydroxymethyltransferase, cytosolic OS=Homo sapiens GN=SHMT1 PE=1 SV=1 Back     alignment and function description
>sp|P50432|GLYC_CAEEL Serine hydroxymethyltransferase OS=Caenorhabditis elegans GN=mel-32 PE=1 SV=2 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query138
1346156 517 RecName: Full=Serine hydroxymethyltransf 0.898 0.239 0.879 1e-56
134142077 520 mitochondrial serine hydroxymethyltransf 0.898 0.238 0.854 3e-55
134142067 520 mitochondrial serine hydroxymethyltransf 0.898 0.238 0.846 7e-55
118489111 520 unknown [Populus trichocarpa x Populus d 0.891 0.236 0.853 8e-55
224097398 518 precursor of transferase serine hydroxym 0.898 0.239 0.846 8e-55
118488863 520 unknown [Populus trichocarpa x Populus d 0.898 0.238 0.854 1e-54
1346155 517 RecName: Full=Serine hydroxymethyltransf 0.898 0.239 0.846 2e-54
255572828 513 serine hydroxymethyltransferase, putativ 0.905 0.243 0.832 2e-54
224109940 520 precursor of transferase serine hydroxym 0.898 0.238 0.846 2e-54
1707998 518 RecName: Full=Serine hydroxymethyltransf 0.898 0.239 0.856 4e-54
>gi|1346156|sp|P49358.1|GLYN_FLAPR RecName: Full=Serine hydroxymethyltransferase 2, mitochondrial; Short=SHMT; AltName: Full=Glycine hydroxymethyltransferase; AltName: Full=Serine methylase; Flags: Precursor gi|437997|emb|CAA81079.1| glycine hydroxymethyltransferase [Flaveria pringlei] Back     alignment and taxonomy information
 Score =  223 bits (569), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 109/124 (87%), Positives = 113/124 (91%)

Query: 15  QQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYF 74
            +GIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAY 
Sbjct: 394 NKGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYL 453

Query: 75  FDAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETM 134
           FD AVKL VKIK E QGTKLKDFVA  QS+ FQSEI+K  HDVEEYAKQFPTIGFEKETM
Sbjct: 454 FDLAVKLAVKIKGEAQGTKLKDFVAAMQSSAFQSEISKLRHDVEEYAKQFPTIGFEKETM 513

Query: 135 KYKS 138
           KYK+
Sbjct: 514 KYKN 517

Source: Flaveria pringlei

Species: Flaveria pringlei

Genus: Flaveria

Family: Asteraceae

Order: Asterales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|134142077|gb|ABO61382.1| mitochondrial serine hydroxymethyltransferase [Populus tremuloides] Back     alignment and taxonomy information
>gi|134142067|gb|ABO61377.1| mitochondrial serine hydroxymethyltransferase [Populus tremuloides] Back     alignment and taxonomy information
>gi|118489111|gb|ABK96362.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
>gi|224097398|ref|XP_002310916.1| precursor of transferase serine hydroxymethyltransferase 2 [Populus trichocarpa] gi|222850736|gb|EEE88283.1| precursor of transferase serine hydroxymethyltransferase 2 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|118488863|gb|ABK96241.1| unknown [Populus trichocarpa x Populus deltoides] Back     alignment and taxonomy information
>gi|1346155|sp|P49357.1|GLYM_FLAPR RecName: Full=Serine hydroxymethyltransferase 1, mitochondrial; Short=SHMT; AltName: Full=Glycine hydroxymethyltransferase; AltName: Full=Serine methylase; Flags: Precursor gi|437995|emb|CAA81078.1| glycine hydroxymethyltransferase [Flaveria pringlei] Back     alignment and taxonomy information
>gi|255572828|ref|XP_002527346.1| serine hydroxymethyltransferase, putative [Ricinus communis] gi|223533265|gb|EEF35018.1| serine hydroxymethyltransferase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224109940|ref|XP_002315363.1| precursor of transferase serine hydroxymethyltransferase 7 [Populus trichocarpa] gi|222864403|gb|EEF01534.1| precursor of transferase serine hydroxymethyltransferase 7 [Populus trichocarpa] Back     alignment and taxonomy information
>gi|1707998|sp|P50433.1|GLYM_SOLTU RecName: Full=Serine hydroxymethyltransferase, mitochondrial; Short=SHMT; AltName: Full=Glycine hydroxymethyltransferase; AltName: Full=Serine methylase; Flags: Precursor gi|438247|emb|CAA81082.1| glycine hydroxymethyltransferase [Solanum tuberosum] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query138
TAIR|locus:2005518517 SHM1 "serine transhydroxymethy 0.891 0.237 0.806 1.4e-48
TAIR|locus:2148463533 SHM2 "serine hydroxymethyltran 0.884 0.228 0.813 1.2e-47
UNIPROTKB|Q3SZ20504 SHMT2 "Serine hydroxymethyltra 0.818 0.224 0.491 4.5e-24
UNIPROTKB|F1SL74504 LOC100626911 "Serine hydroxyme 0.826 0.226 0.504 9.8e-24
UNIPROTKB|Q4KLG7352 Shmt1 "Serine hydroxymethyltra 0.818 0.321 0.504 1.1e-23
UNIPROTKB|Q60V73511 mel-32 "Serine hydroxymethyltr 0.804 0.217 0.504 1.3e-23
UNIPROTKB|B4DPM9345 SHMT1 "Serine hydroxymethyltra 0.811 0.324 0.486 2.9e-23
WB|WBGene00003214507 mel-32 [Caenorhabditis elegans 0.818 0.222 0.495 3.5e-23
UNIPROTKB|P50432507 mel-32 "Serine hydroxymethyltr 0.818 0.222 0.495 3.5e-23
RGD|1312011681 Shmt1 "serine hydroxymethyltra 0.818 0.165 0.504 1e-22
TAIR|locus:2005518 SHM1 "serine transhydroxymethyltransferase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 507 (183.5 bits), Expect = 1.4e-48, P = 1.4e-48
 Identities = 100/124 (80%), Positives = 113/124 (91%)

Query:    16 QGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFF 75
             +GIDGSRVEKVLEAVHIA+NKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVA +F
Sbjct:   394 KGIDGSRVEKVLEAVHIASNKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAEYF 453

Query:    76 DAAVKLTVKIKSETQGTKLKDFVATTQSAN-FQSEIAKRCHDVEEYAKQFPTIGFEKETM 134
             D AV + +K+KSE QGTKLKDFV+  +S++  QSEIAK  H+VEE+AKQFPTIGFEKETM
Sbjct:   454 DKAVTIALKVKSEAQGTKLKDFVSAMESSSTIQSEIAKLRHEVEEFAKQFPTIGFEKETM 513

Query:   135 KYKS 138
             KYK+
Sbjct:   514 KYKN 517
GO:0003824 "catalytic activity" evidence=IEA
GO:0004372 "glycine hydroxymethyltransferase activity" evidence=IEA;ISS;TAS
GO:0005739 "mitochondrion" evidence=ISM;IDA
GO:0006544 "glycine metabolic process" evidence=IEA;ISS
GO:0006563 "L-serine metabolic process" evidence=IEA;ISS
GO:0019464 "glycine decarboxylation via glycine cleavage system" evidence=IMP
GO:0030170 "pyridoxal phosphate binding" evidence=IEA
GO:0005759 "mitochondrial matrix" evidence=ISS
GO:0005634 "nucleus" evidence=IDA
GO:0009507 "chloroplast" evidence=IDA
GO:0009626 "plant-type hypersensitive response" evidence=TAS
GO:0022626 "cytosolic ribosome" evidence=IDA
GO:0046686 "response to cadmium ion" evidence=IEP
GO:0009409 "response to cold" evidence=IEP;RCA
GO:0010319 "stromule" evidence=IDA
GO:0005886 "plasma membrane" evidence=IDA
GO:0009853 "photorespiration" evidence=IMP
GO:0016020 "membrane" evidence=IDA
GO:0008266 "poly(U) RNA binding" evidence=IDA
GO:0048046 "apoplast" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0009534 "chloroplast thylakoid" evidence=IDA
GO:0009570 "chloroplast stroma" evidence=IDA
GO:0009697 "salicylic acid biosynthetic process" evidence=RCA
GO:0009814 "defense response, incompatible interaction" evidence=RCA
GO:0019684 "photosynthesis, light reaction" evidence=RCA
GO:0042742 "defense response to bacterium" evidence=RCA
TAIR|locus:2148463 SHM2 "serine hydroxymethyltransferase 2" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q3SZ20 SHMT2 "Serine hydroxymethyltransferase, mitochondrial" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SL74 LOC100626911 "Serine hydroxymethyltransferase" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q4KLG7 Shmt1 "Serine hydroxymethyltransferase" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q60V73 mel-32 "Serine hydroxymethyltransferase" [Caenorhabditis briggsae (taxid:6238)] Back     alignment and assigned GO terms
UNIPROTKB|B4DPM9 SHMT1 "Serine hydroxymethyltransferase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
WB|WBGene00003214 mel-32 [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
UNIPROTKB|P50432 mel-32 "Serine hydroxymethyltransferase" [Caenorhabditis elegans (taxid:6239)] Back     alignment and assigned GO terms
RGD|1312011 Shmt1 "serine hydroxymethyltransferase 1 (soluble)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9SZJ5GLYM_ARATH2, ., 1, ., 2, ., 10.80640.89130.2379yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer2.1.2LOW CONFIDENCE prediction!
4th Layer2.1.2.1LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
SHMT2
precursor of transferase serine hydroxymethyltransferase 2 (EC-2.1.2.1); Interconversion of serine and glycine (By similarity) (518 aa)
(Populus trichocarpa)
Predicted Functional Partners:
gdcP1
precursor of carboxylase p-protein 1, glycine decarboxylase complex (EC-1.4.4.2) (1061 aa)
•  • •• 0.945
eugene3.00002342
methionyl-trna formyltransferase (EC-2.1.2.9) (356 aa)
     •• 0.930
FTHFS1
10-formyltetrahydrofolate synthetase (EC-6.3.4.3) (636 aa)
    ••• 0.926
gdcT1
precursor of carboxylase t-protein 1, glycine decarboxylase complex (EC-2.1.2.10); The glycine [...] (409 aa)
•    •• 0.920
gdcT2
RecName- Full=Aminomethyltransferase; EC=2.1.2.10;; The glycine cleavage system catalyzes the d [...] (409 aa)
•    •• 0.920
estExt_fgenesh4_pm.C_LG_X0439
aminoimidazolecarboximide ribonucleotide transformylase/inosine monophosphate cyclohydrolase (E [...] (545 aa)
   • •• 0.916
estExt_Genewise1_v1.C_LG_XIII1664
threonine aldolase (EC-4.1.2.5) (344 aa)
    ••• 0.915
estExt_fgenesh4_pg.C_LG_I1607
serine--glyoxylate transaminase (EC-2.6.1.45) (401 aa)
     •• 0.914
estExt_fgenesh4_pg.C_LG_XIX0195
threonine aldolase (EC-4.1.2.5) (359 aa)
     •• 0.913
estExt_Genewise1_v1.C_LG_IX3694
serine--glyoxylate transaminase (EC-2.6.1.45) (401 aa)
     •• 0.913

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query138
PLN03226475 PLN03226, PLN03226, serine hydroxymethyltransferas 2e-66
PTZ00094452 PTZ00094, PTZ00094, serine hydroxymethyltransferas 1e-40
pfam00464380 pfam00464, SHMT, Serine hydroxymethyltransferase 3e-26
cd00378402 cd00378, SHMT, Serine-glycine hydroxymethyltransfe 4e-26
PRK00011416 PRK00011, glyA, serine hydroxymethyltransferase; R 4e-22
COG0112413 COG0112, GlyA, Glycine/serine hydroxymethyltransfe 2e-21
PLN02271586 PLN02271, PLN02271, serine hydroxymethyltransferas 2e-20
PRK13034416 PRK13034, PRK13034, serine hydroxymethyltransferas 1e-15
PRK13580493 PRK13580, PRK13580, serine hydroxymethyltransferas 5e-11
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional Back     alignment and domain information 
 Score =  207 bits (530), Expect = 2e-66
 Identities = 69/122 (56%), Positives = 86/122 (70%), Gaps = 1/122 (0%)

Query: 16  QGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFF 75
            G+ GSRVEKVL+  HI  NKN VPGD SA+VPGG+R+GTPA+TSRG VE+DF KVA F 
Sbjct: 354 LGLTGSRVEKVLDLAHITLNKNAVPGDSSALVPGGVRIGTPAMTSRGLVEKDFEKVAEFL 413

Query: 76  DAAVKLTVKIKSETQGTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGFEKETMK 135
             AV + +KI+ E  G KLKDF    +S +F  +I     +VEE+A  FP  GF+KE+MK
Sbjct: 414 HRAVTIALKIQKEH-GKKLKDFKKGLESNDFSKDIEALRAEVEEFATSFPMPGFDKESMK 472

Query: 136 YK 137
           YK
Sbjct: 473 YK 474

Length = 475
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional Back     alignment and domain information
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase Back     alignment and domain information
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT) Back     alignment and domain information
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed Back     alignment and domain information
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism] Back     alignment and domain information
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase Back     alignment and domain information
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed Back     alignment and domain information
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 138
KOG2467477 consensus Glycine/serine hydroxymethyltransferase 100.0
PLN02271586 serine hydroxymethyltransferase 100.0
COG0112413 GlyA Glycine/serine hydroxymethyltransferase [Amin 100.0
PLN03226475 serine hydroxymethyltransferase; Provisional 99.96
PF00464399 SHMT: Serine hydroxymethyltransferase; InterPro: I 99.91
PRK13580493 serine hydroxymethyltransferase; Provisional 99.86
PTZ00094452 serine hydroxymethyltransferase; Provisional 99.76
PRK13034416 serine hydroxymethyltransferase; Reviewed 99.63
PRK00011416 glyA serine hydroxymethyltransferase; Reviewed 99.26
cd00378402 SHMT Serine-glycine hydroxymethyltransferase (SHMT 98.85
cd00617431 Tnase_like Tryptophanase family (Tnase). This fami 97.5
PRK13238460 tnaA tryptophanase/L-cysteine desulfhydrase, PLP-d 97.02
TIGR01979403 sufS cysteine desulfurases, SufS subfamily. This m 86.56
PRK06225380 aspartate aminotransferase; Provisional 85.84
PRK00950361 histidinol-phosphate aminotransferase; Validated 85.68
cd00616352 AHBA_syn 3-amino-5-hydroxybenzoic acid synthase fa 85.13
PLN02721353 threonine aldolase 80.03
>KOG2467 consensus Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-37  Score=261.93  Aligned_cols=126  Identities=56%  Similarity=0.811  Sum_probs=116.9

Q ss_pred             ceeEEEEeccCCCCCHHHHHHHHhhcCceeccccCCCCCCCCCCCceeecChhhhhcCCCHHHHHHHHHHHHHHHHhhhh
Q 032537            5 MILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVK   84 (138)
Q Consensus         5 ~tHlvlvDlr~~gl~G~~ae~~Le~~gI~vNkn~iP~d~~~~~~sGiRlGT~alTtRG~~e~dm~~IA~lI~~~l~~~~~   84 (138)
                      -+||||||||+.|++|..+|++||.|+|++|||++|+|.|++.|+||||||||||+|||.|+||++||++|+++++++.+
T Consensus       350 DnHlvLvDLr~~G~dGarvE~vle~~~I~~NKNtvpGD~Sal~PgGiRiGtPAmTsRG~~e~df~~v~~fi~~av~i~~~  429 (477)
T KOG2467|consen  350 DNHLVLVDLRPKGVDGARVEKVLELCHIALNKNTVPGDKSALSPGGIRIGTPAMTSRGFGEEDFEKVADFIDRAVKIALE  429 (477)
T ss_pred             cceEEEEeccccCCchHHHHHHHHHhhhhhcCCcCCCCccccCCCceeccchhhcccCccHHHHHHHHHHHHHHHHHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccccchhhhhHhhhhcccc-HHHHHHHHHHHHHHHhhCCCCCcc
Q 032537           85 IKSETQGTKLKDFVATTQSANF-QSEIAKRCHDVEEYAKQFPTIGFE  130 (138)
Q Consensus        85 ~~~~~~g~~~~df~~~~~~~~~-~~~~~~ir~~V~~l~~~fp~~~~~  130 (138)
                      ++.+.++++++||++.+.+++. .++++++|++|++|+.+||+|+++
T Consensus       430 ~~~~~~~~~lkdf~~~~~~~~~~~~~v~~Lr~~Ve~fa~~fp~pg~~  476 (477)
T KOG2467|consen  430 IQKEAGGKKLKDFKKFLSENKVMSEEVAELRKRVEEFAGQFPMPGFE  476 (477)
T ss_pred             HHhhcccchHHHHHHHhccCchhHHHHHHHHHHHHHHHhcCCCCCCC
Confidence            9887666999999988876531 247889999999999999999874

>PLN02271 serine hydroxymethyltransferase Back     alignment and domain information
>COG0112 GlyA Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism] Back     alignment and domain information
>PLN03226 serine hydroxymethyltransferase; Provisional Back     alignment and domain information
>PF00464 SHMT: Serine hydroxymethyltransferase; InterPro: IPR001085 Synonym(s): Serine hydroxymethyltransferase, Serine aldolase, Threonine aldolase Serine hydroxymethyltransferase (SHMT) is a pyridoxal phosphate (PLP) dependent enzyme and belongs to the aspartate aminotransferase superfamily (fold type I) [] Back     alignment and domain information
>PRK13580 serine hydroxymethyltransferase; Provisional Back     alignment and domain information
>PTZ00094 serine hydroxymethyltransferase; Provisional Back     alignment and domain information
>PRK13034 serine hydroxymethyltransferase; Reviewed Back     alignment and domain information
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed Back     alignment and domain information
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT) Back     alignment and domain information
>cd00617 Tnase_like Tryptophanase family (Tnase) Back     alignment and domain information
>PRK13238 tnaA tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional Back     alignment and domain information
>TIGR01979 sufS cysteine desulfurases, SufS subfamily Back     alignment and domain information
>PRK06225 aspartate aminotransferase; Provisional Back     alignment and domain information
>PRK00950 histidinol-phosphate aminotransferase; Validated Back     alignment and domain information
>cd00616 AHBA_syn 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn) Back     alignment and domain information
>PLN02721 threonine aldolase Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query138
1bj4_A470 Recombinant Serine Hydroxymethyltransferase (human) 1e-25
3ou5_A490 Human Mitochondrial Serine Hydroxymethyltransferase 8e-25
1eji_A478 Recombinant Serine Hydroxymethyltransferase (Mouse) 8e-24
1rv3_A483 E75l Mutant Of Rabbit Cytosolic Serine Hydroxymethy 3e-23
1cj0_A470 Crystal Structure Of Rabbit Cytosolic Serine Hydrox 3e-23
1rvu_A483 E75q Mutant Of Rabbit Cytosolic Serine Hydroxymethy 3e-23
1ls3_B483 Crystal Structure Of The Complex Between Rabbit Cyt 3e-23
2dkj_A407 Crystal Structure Of T.Th.Hb8 Serine Hydroxymethylt 3e-09
3pgy_A415 Serine Hydroxymethyltransferase From Staphylococcus 4e-09
3h7f_A447 Crystal Structure Of Serine Hydroxymethyltransferas 4e-08
1yjs_A419 K226q Mutant Of Serine Hydroxymethyltransferase Fro 1e-07
2w7d_A405 Crystal Structure Of Y51fbsshmt Internal Aldimine L 1e-07
2w7i_A405 Crystal Structure Of Y61absshmt Internal Aldimine L 1e-07
2vmr_A405 Crystal Structure Of Y60absshmt Internal Aldimine L 1e-07
1kkj_A419 Crystal Structure Of Serine Hydroxymethyltransferas 1e-07
1yjy_A419 K226m Mutant Of Serine Hydroxymethyltransferase Fro 1e-07
2vi8_A405 Crystal Structure Of S172absshmt Internal Aldimine 1e-07
2vgs_A407 Crystal Structure Of E53qbsshmt Internal Aldimine L 1e-07
2vmv_A405 Crystal Structure Of F351gbsshmt Internal Aldimine 2e-07
3n0l_A417 Crystal Structure Of Serine Hydroxymethyltransferas 4e-07
3ecd_A425 Crystal Structure Of Serine Hydroxymethyltransferas 5e-07
2vmn_A405 Crystal Structure Of N341absshmt Internal Aldimine 1e-06
1dfo_A417 Crystal Structure At 2.4 Angstrom Resolution Of E. 8e-06
1eqb_A417 X-Ray Crystal Structure At 2.7 Angstroms Resolution 8e-06
3g8m_A417 Serine Hydroxymethyltransferase Y55f Mutant Length 8e-06
3gbx_A420 Serine Hydroxymethyltransferase From Salmonella Typ 9e-06
>pdb|1BJ4|A Chain A, Recombinant Serine Hydroxymethyltransferase (human) Length = 470 Back     alignment and structure 
Iteration: 1

 Score =  111 bits (277), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 55/118 (46%), Positives = 74/118 (62%), Gaps = 1/118 (0%)
Query: 13  FHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVA 72
              +G DG R EKVLEA  IA NKNT PGD SA+ P G+R+GTPALTSRG +E+DF KVA
Sbjct: 353 LRSKGTDGGRAEKVLEACSIACNKNTCPGDRSALRPSGLRLGTPALTSRGLLEKDFQKVA 412
Query: 73  YFFDAAVKLTVKIKSETQ-GTKLKDFVATTQSANFQSEIAKRCHDVEEYAKQFPTIGF 129
           +F    ++LT++I+S+T     LK+F        +Q+ +     +VE +A  FP  G 
Sbjct: 413 HFIHRGIELTLQIQSDTGVAATLKEFKERLAGDKYQAAVQALREEVESFASLFPLPGL 470
>pdb|3OU5|A Chain A, Human Mitochondrial Serine Hydroxymethyltransferase 2 Length = 490 Back     alignment and structure
>pdb|1EJI|A Chain A, Recombinant Serine Hydroxymethyltransferase (Mouse) Length = 478 Back     alignment and structure
>pdb|1RV3|A Chain A, E75l Mutant Of Rabbit Cytosolic Serine Hydroxymethyltransferase, Complex With Glycine Length = 483 Back     alignment and structure
>pdb|1CJ0|A Chain A, Crystal Structure Of Rabbit Cytosolic Serine Hydroxymethyltransferase At 2.8 Angstrom Resolution Length = 470 Back     alignment and structure
>pdb|1RVU|A Chain A, E75q Mutant Of Rabbit Cytosolic Serine Hydroxymethyltransferase Length = 483 Back     alignment and structure
>pdb|1LS3|B Chain B, Crystal Structure Of The Complex Between Rabbit Cytosolic Serine Hydroxymethyltransferase And Triglu-5-Formyl-Tetrahydrofolate Length = 483 Back     alignment and structure
>pdb|2DKJ|A Chain A, Crystal Structure Of T.Th.Hb8 Serine Hydroxymethyltransferase Length = 407 Back     alignment and structure
>pdb|3PGY|A Chain A, Serine Hydroxymethyltransferase From Staphylococcus Aureus, S95p Mutant. Length = 415 Back     alignment and structure
>pdb|3H7F|A Chain A, Crystal Structure Of Serine Hydroxymethyltransferase From Mycobacterium Tuberculosis Length = 447 Back     alignment and structure
>pdb|1YJS|A Chain A, K226q Mutant Of Serine Hydroxymethyltransferase From B. Stearothermophilus, Complex With Glycine Length = 419 Back     alignment and structure
>pdb|2W7D|A Chain A, Crystal Structure Of Y51fbsshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|2W7I|A Chain A, Crystal Structure Of Y61absshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|2VMR|A Chain A, Crystal Structure Of Y60absshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|1KKJ|A Chain A, Crystal Structure Of Serine Hydroxymethyltransferase From B.Stearothermophilus Length = 419 Back     alignment and structure
>pdb|1YJY|A Chain A, K226m Mutant Of Serine Hydroxymethyltransferase From B. Stearothermophilus, Complex With Serine Length = 419 Back     alignment and structure
>pdb|2VI8|A Chain A, Crystal Structure Of S172absshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|2VGS|A Chain A, Crystal Structure Of E53qbsshmt Internal Aldimine Length = 407 Back     alignment and structure
>pdb|2VMV|A Chain A, Crystal Structure Of F351gbsshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|3N0L|A Chain A, Crystal Structure Of Serine Hydroxymethyltransferase From Campylobacter Jejuni Length = 417 Back     alignment and structure
>pdb|3ECD|A Chain A, Crystal Structure Of Serine Hydroxymethyltransferase From Burkholderia Pseudomallei Length = 425 Back     alignment and structure
>pdb|2VMN|A Chain A, Crystal Structure Of N341absshmt Internal Aldimine Length = 405 Back     alignment and structure
>pdb|1DFO|A Chain A, Crystal Structure At 2.4 Angstrom Resolution Of E. Coli Serine Hydroxymethyltransferase In Complex With Glycine And 5-Formyl Tetrahydrofolate Length = 417 Back     alignment and structure
>pdb|1EQB|A Chain A, X-Ray Crystal Structure At 2.7 Angstroms Resolution Of Ternary Complex Between The Y65f Mutant Of E-Coli Serine Hydroxymethyltransferase, Glycine And 5-Formyl Tetrahydrofolate Length = 417 Back     alignment and structure
>pdb|3G8M|A Chain A, Serine Hydroxymethyltransferase Y55f Mutant Length = 417 Back     alignment and structure
>pdb|3GBX|A Chain A, Serine Hydroxymethyltransferase From Salmonella Typhimurium Length = 420 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query138
1rv3_A483 Serine hydroxymethyltransferase, cytosolic; one-ca 3e-44
2a7v_A490 Serine hydroxymethyltransferase; structural genomi 1e-43
2dkj_A407 Serine hydroxymethyltransferase; PLP dependent enz 1e-19
2vi8_A405 Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, 3e-19
3h7f_A447 Serine hydroxymethyltransferase 1; cytoplasm, one- 3e-19
3gbx_A420 Serine hydroxymethyltransferase; structural genomi 7e-19
3ecd_A425 Serine hydroxymethyltransferase 2; ssgcid, decode, 8e-19
3n0l_A417 Serine hydroxymethyltransferase; alpha beta class, 1e-18
>1rv3_A Serine hydroxymethyltransferase, cytosolic; one-carbon metabolism; HET: GLY PLP; 2.40A {Oryctolagus cuniculus} SCOP: c.67.1.4 PDB: 1rv4_A* 1rvu_A* 1rvy_A* 1ls3_A* 1cj0_A* 1bj4_A* 1eji_A* Length = 483 Back     alignment and structure
 Score =  149 bits (379), Expect = 3e-44
 Identities = 55/117 (47%), Positives = 71/117 (60%), Gaps = 2/117 (1%)

Query: 16  QGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFF 75
           +G DG R EKVLEA  IA NKNT PGD SA+ P G+R+GTPALTSRG +E+DF KVA+F 
Sbjct: 365 KGTDGGRAEKVLEACSIACNKNTCPGDKSALRPSGLRLGTPALTSRGLLEKDFQKVAHFI 424

Query: 76  DAAVKLTVKIKSET-QGTKLKDFVATTQS-ANFQSEIAKRCHDVEEYAKQFPTIGFE 130
              ++LTV+I+ +T     LK+F          Q  +     +VE +A  FP  G  
Sbjct: 425 HRGIELTVQIQDDTGPRATLKEFKEKLAGDEKHQRAVRALRQEVESFAALFPLPGLP 481
>2a7v_A Serine hydroxymethyltransferase; structural genomics, structural genomics consortium, SGC; 2.04A {Homo sapiens} SCOP: c.67.1.4 PDB: 3ou5_A Length = 490 Back     alignment and structure
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural genomics; HET: PLP; 1.15A {Thermus thermophilus} Length = 407 Back     alignment and structure
>2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory, pyridoxal phosphate, one-carbon metabolism, PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A* 1kkj_A* 1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 2w7f_A* 2w7d_A* 2w7e_A* 2w7g_A* 2w7h_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A* 2vgt_A* 2vgv_A* 2vgw_A* ... Length = 405 Back     alignment and structure
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon metabolism, pyridoxal phosphate, structural genomics; HET: LLP; 1.50A {Mycobacterium tuberculosis} Length = 447 Back     alignment and structure
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011, serine hydroxymethyltransfera salmonella typhimurium.; HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A* 3g8m_A* 1eqb_A* Length = 420 Back     alignment and structure
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A, one-carbon metabolism, pyridoxa phosphate, structural genomics; 1.60A {Burkholderia pseudomallei} Length = 425 Back     alignment and structure
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA) sandwich, CSGI transferase, structural genomics; HET: MSE; 1.80A {Campylobacter jejuni} Length = 417 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query138
3ou5_A490 Serine hydroxymethyltransferase, mitochondrial; st 100.0
2a7v_A490 Serine hydroxymethyltransferase; structural genomi 99.94
1rv3_A483 Serine hydroxymethyltransferase, cytosolic; one-ca 99.82
3h7f_A447 Serine hydroxymethyltransferase 1; cytoplasm, one- 99.66
3n0l_A417 Serine hydroxymethyltransferase; alpha beta class, 99.43
3gbx_A420 Serine hydroxymethyltransferase; structural genomi 99.31
3ecd_A425 Serine hydroxymethyltransferase 2; ssgcid, decode, 99.17
2dkj_A407 Serine hydroxymethyltransferase; PLP dependent enz 98.24
2vi8_A405 Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, 98.11
3get_A365 Histidinol-phosphate aminotransferase; NP_281508.1 89.52
1iug_A352 Putative aspartate aminotransferase; wild type, py 89.37
3g0t_A437 Putative aminotransferase; NP_905498.1, putative a 89.32
3ly1_A354 Putative histidinol-phosphate aminotransferase; st 88.85
3nra_A407 Aspartate aminotransferase; structural genomics, j 88.35
2bkw_A385 Alanine-glyoxylate aminotransferase 1; analine-gly 88.27
3if2_A444 Aminotransferase; YP_265399.1, structura genomics, 87.36
2c0r_A362 PSAT, phosphoserine aminotransferase; pyridoxal-5' 87.04
3g7q_A417 Valine-pyruvate aminotransferase; NP_462565.1, str 86.44
2fyf_A398 PSAT, phosphoserine aminotransferase; PLP-dependen 86.16
2zyj_A397 Alpha-aminodipate aminotransferase; alpha-aminoadi 85.68
3ffh_A363 Histidinol-phosphate aminotransferase; APC88260, l 85.6
1m32_A366 2-aminoethylphosphonate-pyruvate aminotransferase; 85.07
3zrp_A384 Serine-pyruvate aminotransferase (AGXT); HET: PLP; 84.74
3dzz_A391 Putative pyridoxal 5'-phosphate-dependent C-S LYA; 84.61
1jg8_A347 L-ALLO-threonine aldolase; glycine biosynthesis, p 83.79
3euc_A367 Histidinol-phosphate aminotransferase 2; YP_297314 83.72
2gb3_A409 Aspartate aminotransferase; TM1698, structural gen 83.68
3l8a_A421 METC, putative aminotransferase, probable beta-cys 83.48
3cq5_A369 Histidinol-phosphate aminotransferase; PLP, PMP, a 83.44
4dq6_A391 Putative pyridoxal phosphate-dependent transferas; 82.98
2yrr_A353 Aminotransferase, class V; structural genomics, NP 82.96
3kax_A383 Aminotransferase, classes I and II; PLP, C-S lyase 82.55
2dr1_A386 PH1308 protein, 386AA long hypothetical serine ami 82.09
3ez1_A423 Aminotransferase MOCR family; YP_604413.1, struct 81.67
1gd9_A389 Aspartate aminotransferase; pyridoxal enzyme, temp 81.38
3h14_A391 Aminotransferase, classes I and II; YP_167802.1, S 80.44
3fdb_A377 Beta C-S lyase, putative PLP-dependent beta-cystat 80.04
>3ou5_A Serine hydroxymethyltransferase, mitochondrial; structural genomics, STRU genomics consortium, SGC; 2.04A {Homo sapiens} Back     alignment and structure
Probab=100.00  E-value=1.3e-37  Score=268.16  Aligned_cols=125  Identities=43%  Similarity=0.711  Sum_probs=111.7

Q ss_pred             ceeEEEEeccCCCCCHHHHHHHHhhcCceeccccCCCCCCCCCCCceeecChhhhhcCCCHHHHHHHHHHHHHHHHhhhh
Q 032537            5 MILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVK   84 (138)
Q Consensus         5 ~tHlvlvDlr~~gl~G~~ae~~Le~~gI~vNkn~iP~d~~~~~~sGiRlGT~alTtRG~~e~dm~~IA~lI~~~l~~~~~   84 (138)
                      -||||||||+++|++|++|+++|+++||+||||+||+|++|++||||||||||+|||||+|+||++||+||+++|....+
T Consensus       364 dnHlvLvDl~~~g~tG~~ae~~Le~agItvNkN~iP~D~sp~~~SGiRiGTpa~TtRG~~e~dm~~IA~~I~~~l~~~~~  443 (490)
T 3ou5_A          364 DNHLVLVDLRPKGLDGARAERVLELVSITANKNTCPGDRSAITPGGLRLGAPALTSRQFREDDFRRVVDFIDEGVNIGLE  443 (490)
T ss_dssp             SSSEEEEECGGGTCCHHHHHHHHHHTTEECEEECCTTCCCSSSCSEEEEESHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEeccccCCCHHHHHHHHHHcCcEECCCCCCCCCCCCCCCeeEECCHHHHhCCCCHHHHHHHHHHHHHHHHhhhh
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999998877


Q ss_pred             hhhccccchhhhhHhhhhcc-ccHHHHHHHHHHHHHHHhhCCCCCccc
Q 032537           85 IKSETQGTKLKDFVATTQSA-NFQSEIAKRCHDVEEYAKQFPTIGFEK  131 (138)
Q Consensus        85 ~~~~~~g~~~~df~~~~~~~-~~~~~~~~ir~~V~~l~~~fp~~~~~~  131 (138)
                      ++..  ..+++||+..+..+ ++.+.++++|++|.+||++||+|++|+
T Consensus       444 ~~~~--~~kl~~f~~~~~~~~~~~~~i~~lr~~V~~l~~~FP~pg~d~  489 (490)
T 3ou5_A          444 VKSK--TAKLQDFKSFLLKDSETSQRLANLRQRVEQFARAFPMPGFDE  489 (490)
T ss_dssp             HHHT--CCSHHHHHHHHHHCHHHHHHHHHHHHHHHHHHTTSCCSSCSC
T ss_pred             hhhh--hhhhHHHHHHHhcCcccHHHHHHHHHHHHHHHHhCCCCCCCC
Confidence            7654  34688988655322 224578999999999999999999874
>2a7v_A Serine hydroxymethyltransferase; structural genomics, structural genomics consortium, SGC; 2.04A {Homo sapiens} PDB: 3ou5_A Back     alignment and structure
>1rv3_A Serine hydroxymethyltransferase, cytosolic; one-carbon metabolism; HET: GLY PLP; 2.40A {Oryctolagus cuniculus} SCOP: c.67.1.4 PDB: 1rv4_A* 1rvu_A* 1rvy_A* 1ls3_A* 1cj0_A* 1bj4_A* 1eji_A* Back     alignment and structure
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon metabolism, pyridoxal phosphate, structural genomics; HET: LLP; 1.50A {Mycobacterium tuberculosis} Back     alignment and structure
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA) sandwich, CSGI transferase, structural genomics; HET: MSE; 1.80A {Campylobacter jejuni} SCOP: c.67.1.0 Back     alignment and structure
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011, serine hydroxymethyltransfera salmonella typhimurium.; HET: MSE; 1.80A {Salmonella typhimurium} SCOP: c.67.1.4 PDB: 1dfo_A* 3g8m_A* 1eqb_A* Back     alignment and structure
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A, one-carbon metabolism, pyridoxa phosphate, structural genomics; 1.60A {Burkholderia pseudomallei} Back     alignment and structure
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural genomics; HET: PLP; 1.15A {Thermus thermophilus} Back     alignment and structure
>2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory, pyridoxal phosphate, one-carbon metabolism, PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A* 1kkj_A* 1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 2w7f_A* 2w7d_A* 2w7e_A* 2w7g_A* 2w7h_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A* 2vgt_A* 2vgv_A* 2vgw_A* ... Back     alignment and structure
>3get_A Histidinol-phosphate aminotransferase; NP_281508.1, structural genomics, joint center for structural genomics; HET: LLP MSE; 2.01A {Campylobacter jejuni subsp} Back     alignment and structure
>1iug_A Putative aspartate aminotransferase; wild type, pyridoxal-5'-phosphate form, riken structural genomics/proteomics initiative, RSGI; HET: LLP; 2.20A {Thermus thermophilus} SCOP: c.67.1.3 Back     alignment and structure
>3g0t_A Putative aminotransferase; NP_905498.1, putative aspartate aminotransferase, structural genomics, joint center for structural genomics; HET: MSE LLP PE4; 1.75A {Porphyromonas gingivalis} Back     alignment and structure
>3ly1_A Putative histidinol-phosphate aminotransferase; structural G joint center for structural genomics, JCSG; HET: MSE PLP CIT; 1.80A {Erwinia carotovora atroseptica} Back     alignment and structure
>3nra_A Aspartate aminotransferase; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: LLP; 2.15A {Rhodobacter sphaeroides} Back     alignment and structure
>2bkw_A Alanine-glyoxylate aminotransferase 1; analine-glyoxylate aminotransferase, pyridoxal-5-phosphate, SAD, glycolate pathway; HET: LLP; 2.57A {Saccharomyces cerevisiae} SCOP: c.67.1.3 Back     alignment and structure
>3if2_A Aminotransferase; YP_265399.1, structura genomics, joint center for structural genomics, JCSG, prote structure initiative, PSI-2; HET: PLP; 2.50A {Psychrobacter arcticus 273-4} Back     alignment and structure
>2c0r_A PSAT, phosphoserine aminotransferase; pyridoxal-5'-phosphate, pyridine serine biosynthesis, amino-acid biosynthesis, pyridoxal phosphate; HET: PLP; 1.2A {Bacillus circulans} SCOP: c.67.1.4 PDB: 1bt4_A* 1w3u_A* Back     alignment and structure
>3g7q_A Valine-pyruvate aminotransferase; NP_462565.1, structur genomics, joint center for structural genomics, JCSG, prote structure initiative; HET: MSE; 1.80A {Salmonella typhimurium} Back     alignment and structure
>2fyf_A PSAT, phosphoserine aminotransferase; PLP-dependent enzyme, dimer, structural genomics; HET: PLP; 1.50A {Mycobacterium tuberculosis} PDB: 3vom_A* Back     alignment and structure
>2zyj_A Alpha-aminodipate aminotransferase; alpha-aminoadipate aminotransferase; HET: PGU; 1.67A {Thermus thermophilus} PDB: 2egy_A* 2dtv_A* 2zg5_A* 2zp7_A* 2z1y_A* 3cbf_A* Back     alignment and structure
>3ffh_A Histidinol-phosphate aminotransferase; APC88260, listeria in CLIP11262, structural genomics, PSI-2; 2.31A {Listeria innocua} SCOP: c.67.1.0 Back     alignment and structure
>1m32_A 2-aminoethylphosphonate-pyruvate aminotransferase; PLP-dependent aminotransferase fold; HET: PLP; 2.20A {Salmonella typhimurium} SCOP: c.67.1.3 Back     alignment and structure
>3zrp_A Serine-pyruvate aminotransferase (AGXT); HET: PLP; 1.75A {Sulfolobus solfataricus} PDB: 3zrq_A* 3zrr_A* Back     alignment and structure
>3dzz_A Putative pyridoxal 5'-phosphate-dependent C-S LYA; putative PLP-dependent aminotransferase; HET: MSE LLP PG4; 1.61A {Lactobacillus delbrueckii subsp} SCOP: c.67.1.0 Back     alignment and structure
>1jg8_A L-ALLO-threonine aldolase; glycine biosynthesis, pyridoxal-5'- phosphate, calcium binding site, structural genomics, PSI; HET: LLP; 1.80A {Thermotoga maritima} SCOP: c.67.1.1 PDB: 1lw4_A* 1lw5_A* 1m6s_A* 2fm1_A* Back     alignment and structure
>3euc_A Histidinol-phosphate aminotransferase 2; YP_297314.1, structur genomics, joint center for structural genomics, JCSG; HET: MSE; 2.05A {Ralstonia eutropha JMP134} SCOP: c.67.1.0 Back     alignment and structure
>2gb3_A Aspartate aminotransferase; TM1698, structural genomics, PSI structure initiative, joint center for structural genomics; HET: LLP; 2.50A {Thermotoga maritima} SCOP: c.67.1.1 Back     alignment and structure
>3l8a_A METC, putative aminotransferase, probable beta-cystathi; beta-cystathionase, lyase; HET: PLP; 1.54A {Streptococcus mutans} Back     alignment and structure
>3cq5_A Histidinol-phosphate aminotransferase; PLP, PMP, amino-acid biosynthesis, histidine biosynthesis, pyridoxal phosphate; HET: PMP; 1.80A {Corynebacterium glutamicum} PDB: 3cq6_A* 3cq4_A Back     alignment and structure
>4dq6_A Putative pyridoxal phosphate-dependent transferas; structural genomics, niaid, national institute of allergy AN infectious diseases; HET: PLP; 1.50A {Clostridium difficile} PDB: 4dgt_A* Back     alignment and structure
>2yrr_A Aminotransferase, class V; structural genomics, NPPSFA, national PROJ protein structural and functional analyses; HET: PLP; 1.86A {Thermus thermophilus} PDB: 2yri_A* Back     alignment and structure
>2dr1_A PH1308 protein, 386AA long hypothetical serine aminotransferase; PLP, structural genomics, NPPSFA; HET: PLP; 1.90A {Pyrococcus horikoshii} Back     alignment and structure
>3ez1_A Aminotransferase MOCR family; YP_604413.1, struct genomics, joint center for structural genomics, JCSG; 2.60A {Deinococcus geothermalis dsm 11300} Back     alignment and structure
>1gd9_A Aspartate aminotransferase; pyridoxal enzyme, temperature dependence O substrate recognition; HET: PLP; 1.80A {Pyrococcus horikoshii} SCOP: c.67.1.1 PDB: 1gde_A* 1dju_A* Back     alignment and structure
>3h14_A Aminotransferase, classes I and II; YP_167802.1, SPO258 structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.90A {Silicibacter pomeroyi dss-3} Back     alignment and structure
>3fdb_A Beta C-S lyase, putative PLP-dependent beta-cystathionase; PLP-dependent transferase-like fold, structural genomics; HET: LLP; 1.99A {Corynebacterium diphtheriae} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 138
d1rv3a_470 c.67.1.4 (A:) Serine hydroxymethyltransferase {Rab 6e-34
d2a7va1463 c.67.1.4 (A:26-488) Serine hydroxymethyltransferas 6e-32
d1dfoa_416 c.67.1.4 (A:) Serine hydroxymethyltransferase {Esc 1e-23
d1kl1a_405 c.67.1.4 (A:) Serine hydroxymethyltransferase {Bac 3e-23
d2v1pa1467 c.67.1.2 (A:5-471) Tryptophan indol-lyase (tryptop 3e-06
d1ax4a_465 c.67.1.2 (A:) Tryptophan indol-lyase (tryptophanas 2e-04
>d1rv3a_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Rabbit (Oryctolagus cuniculus) [TaxId: 9986]} Length = 470 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: PLP-dependent transferase-like
superfamily: PLP-dependent transferases
family: GABA-aminotransferase-like
domain: Serine hydroxymethyltransferase
species: Rabbit (Oryctolagus cuniculus) [TaxId: 9986]

 Score =  120 bits (303), Expect = 6e-34
 Identities = 55/120 (45%), Positives = 71/120 (59%), Gaps = 2/120 (1%)

Query: 13  FHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVA 72
              +G DG R EKVLEA  IA NKNT PGD SA+ P G+R+GTPALTSRG +E+DF KVA
Sbjct: 349 LRSKGTDGGRAEKVLEACSIACNKNTCPGDKSALRPSGLRLGTPALTSRGLLEKDFQKVA 408

Query: 73  YFFDAAVKLTVKIKSETQ-GTKLKDFVAT-TQSANFQSEIAKRCHDVEEYAKQFPTIGFE 130
           +F    ++LTV+I+ +T     LK+F          Q  +     +VE +A  FP  G  
Sbjct: 409 HFIHRGIELTVQIQDDTGPRATLKEFKEKLAGDEKHQRAVRALRQEVESFAALFPLPGLP 468
>d2a7va1 c.67.1.4 (A:26-488) Serine hydroxymethyltransferase {Human (Homo sapiens), mitochondrial [TaxId: 9606]} Length = 463 Back     information, alignment and structure
>d1dfoa_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Escherichia coli [TaxId: 562]} Length = 416 Back     information, alignment and structure
>d1kl1a_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Bacillus stearothermophilus [TaxId: 1422]} Length = 405 Back     information, alignment and structure
>d2v1pa1 c.67.1.2 (A:5-471) Tryptophan indol-lyase (tryptophanase) {Escherichia coli [TaxId: 562]} Length = 467 Back     information, alignment and structure
>d1ax4a_ c.67.1.2 (A:) Tryptophan indol-lyase (tryptophanase) {Proteus vulgaris [TaxId: 585]} Length = 465 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query138
d2a7va1463 Serine hydroxymethyltransferase {Human (Homo sapie 100.0
d1rv3a_470 Serine hydroxymethyltransferase {Rabbit (Oryctolag 100.0
d1dfoa_416 Serine hydroxymethyltransferase {Escherichia coli 100.0
d1kl1a_405 Serine hydroxymethyltransferase {Bacillus stearoth 99.97
d1m6sa_343 Low-specificity threonine aldolase {Thermotoga mar 96.55
d1d2fa_361 Modulator in mal gene expression, MalY {Escherichi 90.19
d1v72a1345 Phenylserine aldolase PSALD {Pseudomonas putida [T 89.67
d2v1pa1467 Tryptophan indol-lyase (tryptophanase) {Escherichi 89.47
d1ax4a_465 Tryptophan indol-lyase (tryptophanase) {Proteus vu 87.65
d1vjoa_377 Alanine-glyoxylate aminotransferase {Cyanobacteria 87.27
d7aata_401 Aspartate aminotransferase, AAT {Chicken (Gallus g 85.28
d1gdea_388 Aromatic aminoacid aminotransferase, AroAT {Archae 82.43
d1lc5a_355 L-threonine-O-3-phosphate decarboxylase CobD {Salm 81.89
d1ajsa_412 Aspartate aminotransferase, AAT {Pig (Sus scrofa), 80.53
d1h0ca_388 Alanine-glyoxylate aminotransferase {Human (Homo s 80.24
>d2a7va1 c.67.1.4 (A:26-488) Serine hydroxymethyltransferase {Human (Homo sapiens), mitochondrial [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PLP-dependent transferase-like
superfamily: PLP-dependent transferases
family: GABA-aminotransferase-like
domain: Serine hydroxymethyltransferase
species: Human (Homo sapiens), mitochondrial [TaxId: 9606]

Probab=100.00  E-value=2e-36  Score=258.11  Aligned_cols=125  Identities=44%  Similarity=0.720  Sum_probs=112.1

Q ss_pred             ceeEEEEeccCCCCCHHHHHHHHhhcCceeccccCCCCCCCCCCCceeecChhhhhcCCCHHHHHHHHHHHHHHHHhhhh
Q 032537            5 MILLFAKMFHQQGIDGSRVEKVLEAVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFAKVAYFFDAAVKLTVK   84 (138)
Q Consensus         5 ~tHlvlvDlr~~gl~G~~ae~~Le~~gI~vNkn~iP~d~~~~~~sGiRlGT~alTtRG~~e~dm~~IA~lI~~~l~~~~~   84 (138)
                      -|||||||++++|++|.+++++|+++||++|||+||+|++|+.|||||||||++|||||+|+||++||+||+++|..+.+
T Consensus       337 dnHlvlvdl~~~~~~G~~ae~~Le~~gI~~Nkn~iP~D~~~~~~sGiRiGT~a~TtrG~~e~dm~~iA~~I~~~l~~~~~  416 (463)
T d2a7va1         337 DNHLVLVDLRPKGLDGARAERVLELVSITANKNTCPGDRSAITPGGLRLGAPALTSRQFREDDFRRVVDFIDEGVNIGLE  416 (463)
T ss_dssp             SSSEEEEECTTTTCCHHHHHHHHHHTTEECEEECCTTCCCSSSCSEEEEESHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCceeeeeccccCCCHHHHHHHHHhccCccCCccCCCCCCCCCCCceEeCCHHHHhCCCCHHHHHHHHHHHHHHHHHhhh
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999998888


Q ss_pred             hhhccccchhhhhHhhhhcc-ccHHHHHHHHHHHHHHHhhCCCCCccc
Q 032537           85 IKSETQGTKLKDFVATTQSA-NFQSEIAKRCHDVEEYAKQFPTIGFEK  131 (138)
Q Consensus        85 ~~~~~~g~~~~df~~~~~~~-~~~~~~~~ir~~V~~l~~~fp~~~~~~  131 (138)
                      ++...  .+++||+..+..+ ++.+.++++|++|.+||++||+|++|.
T Consensus       417 ~~~~~--~~~~df~~~~~~~~~~~~~i~~lr~~V~~l~~~fP~pg~d~  462 (463)
T d2a7va1         417 VKSKT--AKLQDFKSFLLKDSETSQRLANLRQRVEQFARAFPMPGFDE  462 (463)
T ss_dssp             HHHHC--CSHHHHHHHHHHCHHHHHHHHHHHHHHHHHHTTSCCSSCSC
T ss_pred             hhhhh--hhhHHHHHHHhcCcccHHHHHHHHHHHHHHHHhCCCCCCCC
Confidence            77552  3688988755432 123568999999999999999999975
>d1rv3a_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Rabbit (Oryctolagus cuniculus) [TaxId: 9986]} Back     information, alignment and structure
>d1dfoa_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1kl1a_ c.67.1.4 (A:) Serine hydroxymethyltransferase {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1m6sa_ c.67.1.1 (A:) Low-specificity threonine aldolase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1d2fa_ c.67.1.3 (A:) Modulator in mal gene expression, MalY {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1v72a1 c.67.1.1 (A:6-350) Phenylserine aldolase PSALD {Pseudomonas putida [TaxId: 303]} Back     information, alignment and structure
>d2v1pa1 c.67.1.2 (A:5-471) Tryptophan indol-lyase (tryptophanase) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ax4a_ c.67.1.2 (A:) Tryptophan indol-lyase (tryptophanase) {Proteus vulgaris [TaxId: 585]} Back     information, alignment and structure
>d1vjoa_ c.67.1.3 (A:) Alanine-glyoxylate aminotransferase {Cyanobacteria (Nostoc sp. pcc 7120) [TaxId: 103690]} Back     information, alignment and structure
>d7aata_ c.67.1.1 (A:) Aspartate aminotransferase, AAT {Chicken (Gallus gallus), mitochondria [TaxId: 9031]} Back     information, alignment and structure
>d1gdea_ c.67.1.1 (A:) Aromatic aminoacid aminotransferase, AroAT {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1lc5a_ c.67.1.1 (A:) L-threonine-O-3-phosphate decarboxylase CobD {Salmonella enterica [TaxId: 28901]} Back     information, alignment and structure
>d1ajsa_ c.67.1.1 (A:) Aspartate aminotransferase, AAT {Pig (Sus scrofa), cytosolic form [TaxId: 9823]} Back     information, alignment and structure
>d1h0ca_ c.67.1.3 (A:) Alanine-glyoxylate aminotransferase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure