Citrus Sinensis ID: 031280

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-------140-------150-------160--
MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGKS
cHHHHHcccccEEEcccccccEEEEEEEccccccccccEEEEccEEEEEccccccccccccccccccccccccccEEEEEEcccccEEEEEEcccEEEHHHHHHHcccccEEEEcccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccc
ccHHHHcccccccEEEHHHHcccEcEEEEEcccccccEEEEEEEEEEEccccEEEEEEEEccEEEEEEEccEccEEEEEEEcccccEEEEEEcHHHHHHHHHHHHHHccccHHHHccHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHcHHEEccccc
mfdvmyktdgiglsapqvginVQLMvfnpvgergegeeivlvnprvnkysnkmipyeegclsfpgihadverpesvkidardingarfsvslsdlparVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKyedktglqspekIEASKRRKAAVGFGKS
mfdvmyktdgiglsapqvgiNVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALekkyedktglqspekieaskrrkaavgfgks
MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGKS
***VMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSI**************************************
MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQ***********************************
MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKYEDKTGLQSPEK****************
MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKYEDKTGLQSPE*****************
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVxxxxxxxxxxxxxxxxxxxxxQSPEKIEASKRRKAAVGFGKS
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 ?
Query162 2.2.26 [Sep-21-2011]
Q9FUZ2273 Peptide deformylase 1B, c yes no 0.993 0.589 0.782 2e-74
Q9FV54279 Peptide deformylase 1B, c N/A no 1.0 0.580 0.790 2e-74
Q5VNN5269 Peptide deformylase 1B, c yes no 0.993 0.598 0.708 4e-62
Q7UHZ5201 Peptide deformylase OS=Rh yes no 0.876 0.706 0.405 4e-27
B1XJP0187 Peptide deformylase OS=Sy yes no 0.740 0.641 0.425 5e-27
Q8YSK6187 Peptide deformylase 1 OS= yes no 0.740 0.641 0.416 3e-25
Q7NIF5187 Peptide deformylase 2 OS= yes no 0.740 0.641 0.433 3e-25
Q31DB4201 Peptide deformylase OS=Pr yes no 0.777 0.626 0.421 5e-25
P94601187 Peptide deformylase OS=Fr N/A no 0.740 0.641 0.425 2e-24
A2BNK7201 Peptide deformylase OS=Pr yes no 0.722 0.582 0.435 2e-24
>sp|Q9FUZ2|DEF1B_ARATH Peptide deformylase 1B, chloroplastic OS=Arabidopsis thaliana GN=PDF1B PE=1 SV=2 Back     alignment and function desciption
 Score =  277 bits (709), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 126/161 (78%), Positives = 150/161 (93%)

Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
           MFDVMYKTDGIGLSAPQVG+NVQLMVFNP GE GEG+EIVLVNP++ KYS+K++P++EGC
Sbjct: 112 MFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGC 171

Query: 61  LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDV 120
           LSFPGI+A+V RP+SVKIDARDI G RFS+SLS LPAR+FQHE+DHL+G+LFF+RMTD V
Sbjct: 172 LSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQV 231

Query: 121 LDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGK 161
           LDSIRE+LEALEKKYE+KTGL SPE++EA ++RKA VGFGK
Sbjct: 232 LDSIREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFGK 272
Removes the formyl group from the N-terminal Met of newly synthesized proteins. Has a preferred substrate specificity towards the photosystem II (PS II) D1 polypeptide.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 5EC: .EC: 1EC: .EC: 8EC: 8
>sp|Q9FV54|DEF1B_SOLLC Peptide deformylase 1B, chloroplastic OS=Solanum lycopersicum GN=PDF1B PE=2 SV=1 Back     alignment and function description
>sp|Q5VNN5|DEF1B_ORYSJ Peptide deformylase 1B, chloroplastic OS=Oryza sativa subsp. japonica GN=PDF1B PE=2 SV=1 Back     alignment and function description
>sp|Q7UHZ5|DEF_RHOBA Peptide deformylase OS=Rhodopirellula baltica (strain SH1) GN=def PE=3 SV=1 Back     alignment and function description
>sp|B1XJP0|DEF_SYNP2 Peptide deformylase OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=def PE=3 SV=1 Back     alignment and function description
>sp|Q8YSK6|DEF1_NOSS1 Peptide deformylase 1 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=def1 PE=3 SV=1 Back     alignment and function description
>sp|Q7NIF5|DEF2_GLOVI Peptide deformylase 2 OS=Gloeobacter violaceus (strain PCC 7421) GN=def2 PE=3 SV=1 Back     alignment and function description
>sp|Q31DB4|DEF_PROM9 Peptide deformylase OS=Prochlorococcus marinus (strain MIT 9312) GN=def PE=3 SV=1 Back     alignment and function description
>sp|P94601|DEF_FREDI Peptide deformylase OS=Fremyella diplosiphon GN=def PE=3 SV=1 Back     alignment and function description
>sp|A2BNK7|DEF_PROMS Peptide deformylase OS=Prochlorococcus marinus (strain AS9601) GN=def PE=3 SV=1 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 ?
Query162
255560876 282 polypeptide deformylase, putative [Ricin 1.0 0.574 0.839 2e-76
225452422 275 PREDICTED: peptide deformylase 1B, chlor 1.0 0.589 0.814 2e-73
11320966 273 peptide deformylase [Arabidopsis thalian 0.993 0.589 0.782 4e-73
15241461 273 peptide deformylase 1B [Arabidopsis thal 0.993 0.589 0.782 8e-73
21553551 273 Formylmethionine deformylase [Arabidopsi 0.993 0.589 0.782 1e-72
350535262 279 peptide deformylase 1B, chloroplastic [S 1.0 0.580 0.790 1e-72
297811599 273 predicted protein [Arabidopsis lyrata su 0.993 0.589 0.788 5e-72
327200558193 Chain A, Crystal Structure Of Arabidopsi 0.993 0.834 0.782 6e-72
224060121258 peptide deformylase [Populus trichocarpa 0.993 0.624 0.807 2e-71
327200562193 Chain A, Crystal Structure Of Arabidopsi 0.993 0.834 0.776 4e-71
>gi|255560876|ref|XP_002521451.1| polypeptide deformylase, putative [Ricinus communis] gi|223539350|gb|EEF40941.1| polypeptide deformylase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  289 bits (740), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 136/162 (83%), Positives = 151/162 (93%)

Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
           MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVL+NPR+NKYS K++P+ EGC
Sbjct: 121 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLINPRLNKYSKKIVPFNEGC 180

Query: 61  LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDV 120
           LSFPGI+ADV RPESVKIDARDINGARF+V+LS LPARVFQHE+DHL+GILFF+RMTD+V
Sbjct: 181 LSFPGIYADVLRPESVKIDARDINGARFTVNLSGLPARVFQHEYDHLEGILFFDRMTDEV 240

Query: 121 LDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGKS 162
           LDSIR QL+ALEKK+EDKTG  SPEKIE  K +KAA GFGKS
Sbjct: 241 LDSIRAQLQALEKKFEDKTGYASPEKIETRKTKKAAAGFGKS 282

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225452422|ref|XP_002276964.1| PREDICTED: peptide deformylase 1B, chloroplastic [Vitis vinifera] gi|296087647|emb|CBI34903.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|11320966|gb|AAG33980.1|AF269165_1 peptide deformylase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|15241461|ref|NP_196970.1| peptide deformylase 1B [Arabidopsis thaliana] gi|30684999|ref|NP_850821.1| peptide deformylase 1B [Arabidopsis thaliana] gi|39932734|sp|Q9FUZ2.2|DEF1B_ARATH RecName: Full=Peptide deformylase 1B, chloroplastic; Short=AtDEF2; Short=AtPDF1B; Short=PDF 1B; AltName: Full=Polypeptide deformylase; Flags: Precursor gi|7573315|emb|CAB87633.1| putative protein [Arabidopsis thaliana] gi|15292891|gb|AAK92816.1| unknown protein [Arabidopsis thaliana] gi|20465677|gb|AAM20307.1| unknown protein [Arabidopsis thaliana] gi|332004676|gb|AED92059.1| peptide deformylase 1B [Arabidopsis thaliana] gi|332004677|gb|AED92060.1| peptide deformylase 1B [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|21553551|gb|AAM62644.1| Formylmethionine deformylase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|350535262|ref|NP_001234441.1| peptide deformylase 1B, chloroplastic [Solanum lycopersicum] gi|17433052|sp|Q9FV54.1|DEF1B_SOLLC RecName: Full=Peptide deformylase 1B, chloroplastic; Short=PDF 1B; AltName: Full=Polypeptide deformylase; Flags: Precursor gi|11320950|gb|AAG33972.1| peptide deformylase-like protein [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|297811599|ref|XP_002873683.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297319520|gb|EFH49942.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|327200558|pdb|3M6O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) gi|327200559|pdb|3M6O|B Chain B, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) gi|327200560|pdb|3M6P|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) In Complex With Actinonin gi|327200561|pdb|3M6P|B Chain B, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) In Complex With Actinonin gi|335892336|pdb|3O3J|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) In Complex With Inhibitor 6b gi|335892375|pdb|3PN2|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide Deformylase 1b (Atpdf1b) (Crystallized In Peg-550-Mme) gi|335892376|pdb|3PN3|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide Deformylase 1b (Atpdf1b) In Complex With Inhibitor 21 gi|335892377|pdb|3PN3|B Chain B, Crystal Structure Of Arabidopsis Thaliana Petide Deformylase 1b (Atpdf1b) In Complex With Inhibitor 21 gi|335892378|pdb|3PN4|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide Deformylase 1b (Atpdf1b) In Complex With Actinonin (Crystallized In Peg-550-Mme) Back     alignment and taxonomy information
>gi|224060121|ref|XP_002300047.1| peptide deformylase [Populus trichocarpa] gi|222847305|gb|EEE84852.1| peptide deformylase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|327200562|pdb|3M6Q|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) G41q Mutant In Complex With Actinonin gi|335892379|pdb|3PN5|A Chain A, Crystal Structure Of Arabidopsis Thaliana Petide Deformylase 1b (Atpdf1b) G41q Mutant 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 ?
Query162
TAIR|locus:2222667273 PDF1B "peptide deformylase 1B" 0.993 0.589 0.782 2.7e-68
GENEDB_PFALCIPARUM|PFI0380c241 PFI0380c "formylmethionine def 0.839 0.564 0.452 1.9e-26
UNIPROTKB|Q8I372241 PFI0380c "Formylmethionine def 0.839 0.564 0.452 1.9e-26
TIGR_CMR|BA_4005156 BA_4005 "polypeptide deformyla 0.691 0.717 0.406 4e-19
UNIPROTKB|Q9KN16168 def2 "Peptide deformylase 2" [ 0.765 0.738 0.425 5.1e-19
TIGR_CMR|VC_A0150168 VC_A0150 "polypeptide deformyl 0.765 0.738 0.425 5.1e-19
TIGR_CMR|SO_0032168 SO_0032 "polypeptide deformyla 0.808 0.779 0.402 2.8e-18
TIGR_CMR|CPS_0020171 CPS_0020 "polypeptide deformyl 0.783 0.742 0.356 3.6e-18
UNIPROTKB|P0A6K3169 def [Escherichia coli K-12 (ta 0.802 0.769 0.406 5.8e-18
TIGR_CMR|SPO_3219172 SPO_3219 "peptide deformylase" 0.827 0.779 0.370 1.6e-17
TAIR|locus:2222667 PDF1B "peptide deformylase 1B" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 693 (249.0 bits), Expect = 2.7e-68, P = 2.7e-68
 Identities = 126/161 (78%), Positives = 150/161 (93%)

Query:     1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
             MFDVMYKTDGIGLSAPQVG+NVQLMVFNP GE GEG+EIVLVNP++ KYS+K++P++EGC
Sbjct:   112 MFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGC 171

Query:    61 LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDV 120
             LSFPGI+A+V RP+SVKIDARDI G RFS+SLS LPAR+FQHE+DHL+G+LFF+RMTD V
Sbjct:   172 LSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQV 231

Query:   121 LDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGK 161
             LDSIRE+LEALEKKYE+KTGL SPE++EA ++RKA VGFGK
Sbjct:   232 LDSIREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFGK 272
GO:0005506 "iron ion binding" evidence=IEA
GO:0006412 "translation" evidence=ISS
GO:0009507 "chloroplast" evidence=ISM;IDA
GO:0042586 "peptide deformylase activity" evidence=IEA;ISS;IDA
GO:0010027 "thylakoid membrane organization" evidence=RCA
GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA
GENEDB_PFALCIPARUM|PFI0380c PFI0380c "formylmethionine deformylase, putative" [Plasmodium falciparum (taxid:5833)] Back     alignment and assigned GO terms
UNIPROTKB|Q8I372 PFI0380c "Formylmethionine deformylase, putative" [Plasmodium falciparum 3D7 (taxid:36329)] Back     alignment and assigned GO terms
TIGR_CMR|BA_4005 BA_4005 "polypeptide deformylase" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
UNIPROTKB|Q9KN16 def2 "Peptide deformylase 2" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] Back     alignment and assigned GO terms
TIGR_CMR|VC_A0150 VC_A0150 "polypeptide deformylase" [Vibrio cholerae O1 biovar El Tor (taxid:686)] Back     alignment and assigned GO terms
TIGR_CMR|SO_0032 SO_0032 "polypeptide deformylase" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|CPS_0020 CPS_0020 "polypeptide deformylase" [Colwellia psychrerythraea 34H (taxid:167879)] Back     alignment and assigned GO terms
UNIPROTKB|P0A6K3 def [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_3219 SPO_3219 "peptide deformylase" [Ruegeria pomeroyi DSS-3 (taxid:246200)] 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) ?
P63913DEF_BRUME3, ., 5, ., 1, ., 8, 80.37580.87030.8057yesno
P63914DEF_BRUSU3, ., 5, ., 1, ., 8, 80.37580.87030.8057yesno
Q9FUZ2DEF1B_ARATH3, ., 5, ., 1, ., 8, 80.78260.99380.5897yesno
Q5VNN5DEF1B_ORYSJ3, ., 5, ., 1, ., 8, 80.70800.99380.5985yesno

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 Layer3.5.10.921
3rd Layer3.5.1.880.914

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

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 ?
Query162
pfam01327155 pfam01327, Pep_deformylase, Polypeptide deformylas 3e-52
cd00487141 cd00487, Pep_deformylase, Polypeptide or peptide d 3e-50
PRK00150165 PRK00150, def, peptide deformylase; Reviewed 4e-46
COG0242168 COG0242, Def, N-formylmethionyl-tRNA deformylase [ 8e-46
PRK12846165 PRK12846, PRK12846, peptide deformylase; Reviewed 2e-39
PRK14597166 PRK14597, PRK14597, peptide deformylase; Provision 3e-33
PRK14598187 PRK14598, PRK14598, peptide deformylase; Provision 1e-31
PRK14596199 PRK14596, PRK14596, peptide deformylase; Provision 2e-28
TIGR00079161 TIGR00079, pept_deformyl, peptide deformylase 3e-27
PRK14595162 PRK14595, PRK14595, peptide deformylase; Provision 8e-18
PRK09218136 PRK09218, PRK09218, peptide deformylase; Validated 5e-15
>gnl|CDD|216435 pfam01327, Pep_deformylase, Polypeptide deformylase Back     alignment and domain information 
 Score =  163 bits (414), Expect = 3e-52
 Identities = 49/118 (41%), Positives = 75/118 (63%)

Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
           M + MY  +G+GL+APQ+G++ ++ V +   E GE E +VL+NP +   S + +  EEGC
Sbjct: 34  MLETMYAANGVGLAAPQIGVSKRIFVIDVGDEDGEPEPLVLINPEIISASEETVEGEEGC 93

Query: 61  LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTD 118
           LS PG+  +VERP+ + +  +D+NG    +      ARV QHE DHL GILF +R++ 
Sbjct: 94  LSVPGLRGEVERPKRITVRYQDLNGNEHELEADGFLARVLQHEIDHLNGILFLDRLSK 151

Length = 155
>gnl|CDD|238271 cd00487, Pep_deformylase, Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes Back     alignment and domain information
>gnl|CDD|234668 PRK00150, def, peptide deformylase; Reviewed Back     alignment and domain information
>gnl|CDD|223320 COG0242, Def, N-formylmethionyl-tRNA deformylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>gnl|CDD|237227 PRK12846, PRK12846, peptide deformylase; Reviewed Back     alignment and domain information
>gnl|CDD|237761 PRK14597, PRK14597, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|237762 PRK14598, PRK14598, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|184758 PRK14596, PRK14596, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|232815 TIGR00079, pept_deformyl, peptide deformylase Back     alignment and domain information
>gnl|CDD|184757 PRK14595, PRK14595, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|181704 PRK09218, PRK09218, peptide deformylase; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 162
COG0242168 Def N-formylmethionyl-tRNA deformylase [Translatio 100.0
PRK14597166 peptide deformylase; Provisional 100.0
PRK12846165 peptide deformylase; Reviewed 100.0
PRK14598187 peptide deformylase; Provisional 100.0
PRK00150165 def peptide deformylase; Reviewed 100.0
TIGR00079161 pept_deformyl peptide deformylase. Peptide deformy 100.0
PRK14595162 peptide deformylase; Provisional 100.0
PF01327156 Pep_deformylase: Polypeptide deformylase; InterPro 100.0
PRK14596199 peptide deformylase; Provisional 100.0
cd00487141 Pep_deformylase Polypeptide or peptide deformylase 100.0
PRK09218136 peptide deformylase; Validated 100.0
KOG3137267 consensus Peptide deformylase [Translation, riboso 100.0
COG4740176 Predicted metalloprotease [General function predic 98.16
>COG0242 Def N-formylmethionyl-tRNA deformylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=2.3e-53  Score=337.50  Aligned_cols=131  Identities=37%  Similarity=0.707  Sum_probs=122.4

Q ss_pred             CHHhhhcCCCeeEeccccCccccEEEEecCCCCC-CCceeEEEcceEEeeCCceeecccccCCcCCCceeeccCCeEEEE
Q 031280            1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERG-EGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKID   79 (162)
Q Consensus         1 m~~tM~~~~gvGLAApQIG~~~ri~vi~~~~~~~-~~~~~v~INP~Iv~~s~~~~~~~EgCLS~pg~~~~V~R~~~I~V~   79 (162)
                      |++|||+++||||||||||+++|+||++..++.. ...+.+||||+|++.|.+....+|||||+||+++.|+||.+|+|+
T Consensus        35 M~etm~~~~GVGLAApQIGi~kri~vi~~~~~~~~~~~~~vlINP~I~~~~~~~~~~~EGCLSvP~~~~~V~R~~~I~V~  114 (168)
T COG0242          35 MLETMYAAEGVGLAAPQIGISKRIFVIDVEEDGRPKEPPLVLINPEIISKSEETLTGEEGCLSVPGVRGEVERPERITVK  114 (168)
T ss_pred             HHHHHHhCCCeeeeehhcCceeeEEEEEccCccCcCcCceEEECCEEeecCCcccccCcceEeecCceeeeecccEEEEE
Confidence            8999999999999999999999999999976532 345689999999999888888999999999999999999999999


Q ss_pred             EEcCCCCEEEEEEecchhhhHHhhhhhhCCceeeecCCHHHHHHHHHHHHHH
Q 031280           80 ARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEAL  131 (162)
Q Consensus        80 y~d~~G~~~~~~~~G~~Ar~~QHEiDHL~Gil~~Drl~~~~~~~~~~~~~~~  131 (162)
                      |+|.+|++++++++||+|||||||+|||||+||+||+++..++.+.++++++
T Consensus       115 ~~D~~G~~~~~~a~G~lA~~iQHEiDHLnGvlf~D~l~~~k~~~~~~~~~~~  166 (168)
T COG0242         115 YLDRNGKPQELEAEGLLARCIQHEIDHLNGVLFIDRLSPLKRDRLKKKLKKL  166 (168)
T ss_pred             EEcCCCCEEEEEEcCceeEEeEeeccccCcEEeeeecChhhhhhHHHHHHHh
Confidence            9999999999999999999999999999999999999998888888888764

>PRK14597 peptide deformylase; Provisional Back     alignment and domain information
>PRK12846 peptide deformylase; Reviewed Back     alignment and domain information
>PRK14598 peptide deformylase; Provisional Back     alignment and domain information
>PRK00150 def peptide deformylase; Reviewed Back     alignment and domain information
>TIGR00079 pept_deformyl peptide deformylase Back     alignment and domain information
>PRK14595 peptide deformylase; Provisional Back     alignment and domain information
>PF01327 Pep_deformylase: Polypeptide deformylase; InterPro: IPR023635 Peptide deformylase (PDF) is an essential metalloenzyme required for the removal of the formyl group at the N terminus of nascent polypeptide chains in eubacteria: 3 Back     alignment and domain information
>PRK14596 peptide deformylase; Provisional Back     alignment and domain information
>cd00487 Pep_deformylase Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes Back     alignment and domain information
>PRK09218 peptide deformylase; Validated Back     alignment and domain information
>KOG3137 consensus Peptide deformylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG4740 Predicted metalloprotease [General function prediction only] 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 ?
Query162
3m6o_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 1e-74
3m6q_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 7e-74
3m6r_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 8e-74
3cpm_A193 Plant Peptide Deformylase Pdf1b Crystal Structure L 2e-68
1rl4_A188 Plasmodium Falciparum Peptide Deformylase Complex W 2e-28
4dr9_A192 Crystal Structure Of A Peptide Deformylase From Syn 1e-26
1rqc_A185 Crystals Of Peptide Deformylase From Plasmodium Fal 6e-26
1jym_A183 Crystals Of Peptide Deformylase From Plasmodium Fal 1e-23
3uwa_A154 Crystal Structure Of A Probable Peptide Deformylase 9e-21
1y6h_A177 Crystal Structure Of Lipdf Length = 177 2e-20
1n5n_A180 Crystal Structure Of Peptide Deformylase From Pseud 4e-20
1lry_A167 Crystal Structure Of P. Aeruginosa Peptide Deformyl 6e-20
1ix1_A171 Crystal Structure Of P.Aeruginosa Peptide Deformyla 7e-20
1szz_A177 Crystal Structure Of Peptide Deformylase From Lepto 9e-20
3qu1_A171 Peptide Deformylase From Vibrio Cholerae Length = 1 5e-19
1ws0_A156 Structure Analysis Of Peptide Deformylase From Baci 5e-18
1lme_A176 Crystal Structure Of Peptide Deformylase From Therm 7e-18
1v3y_A192 The Crystal Structure Of Peptide Deformylase From T 7e-18
2w3t_A188 Chloro Complex Of The Ni-Form Of E.Coli Deformylase 1e-17
4al2_A186 Peptide Deformylase (Ni-Form) With Hydrosulfide Len 1e-17
3k6l_A169 The Structure Of E.Coli Peptide Deformylase (Pdf) I 1e-17
1icj_A168 Pdf Protein Is Crystallized As Ni2+ Containing Form 1e-17
4az4_A186 E.Coli Deformylase With Co(Ii) And Hydrosulfide Len 1e-17
1dff_A164 Peptide Deformylase Length = 164 2e-17
2ew5_A181 Structure Of Helicobacter Pylori Peptide Deformylas 1e-16
2def_A147 Peptide Deformylase Catalytic Core (Residues 1-147) 2e-16
1def_A147 Peptide Deformylase Catalytic Core (Residues 1-147) 2e-16
1zxz_A197 X-Ray Structure Of Peptide Deformylase From Arabido 3e-16
4al3_A186 Peptide Deformylase (Co-Form) With Mercaptoethanol 3e-16
3oca_A209 Crystal Structure Of Peptide Deformylase From Ehrli 6e-16
3u04_A190 Crystal Structure Of Peptide Deformylase From Ehrli 7e-16
3fwx_A169 The Crystal Structure Of The Peptide Deformylase Fr 4e-15
1lqw_A183 Crystal Structure Of S.Aureus Peptide Deformylase L 7e-15
1lmh_A184 Crystal Structure Of S. Aureus Peptide Deformylase 2e-14
3g5k_A183 Structure And Activity Of Human Mitochondrial Pepti 3e-14
1q1y_A191 Crystal Structures Of Peptide Deformylase From Stap 9e-14
1lm4_A194 Structure Of Peptide Deformylase From Staphylococcu 2e-13
3dld_A171 Crystal Structure Of Peptide Deformylase, Xoo1075, 2e-13
2okl_A185 Crystal Structure Of Peptide Deformylase 2 With Act 4e-13
1lqy_A184 Crystal Structure Of Bacillus Stearothermophilus Pe 7e-13
3e3u_A197 Crystal Structure Of Mycobacterium Tuberculosis Pep 5e-12
3g6n_A191 Crystal Structure Of An Efpdf Complex With Met-Ala- 2e-09
2os3_A205 Structures Of Actinonin Bound Peptide Deformylases 3e-09
3cmd_A196 Crystal Structure Of Peptide Deformylase From Vre-E 3e-09
3str_P203 Strep Peptide Deformylase With A Time Dependent Thi 4e-09
2ai7_A203 S.Pneumoniae Polypeptide Deformylase Complexed With 4e-09
2aie_P203 S.Pneumoniae Polypeptide Deformylase Complexed With 4e-09
2os1_A188 Structures Of Actinonin Bound Peptide Deformylases 2e-08
1lm6_A215 Crystal Structure Of Peptide Deformylase From Strep 1e-07
3svj_P203 Strep Peptide Deformylase With A Time Dependent Thi 1e-07
2os0_A188 Structures Of Actinonin Bound Peptide Deformylases 1e-07
3l87_A238 The Crystal Structure Of Smu.143c From Streptococcu 4e-07
>pdb|3M6O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) Length = 193 Back     alignment and structure 
Iteration: 1

 Score =  275 bits (702), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 126/161 (78%), Positives = 150/161 (93%)
Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
           MFDVMYKTDGIGLSAPQVG+NVQLMVFNP GE GEG+EIVLVNP++ KYS+K++P++EGC
Sbjct: 32  MFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGC 91
Query: 61  LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDV 120
           LSFPGI+A+V RP+SVKIDARDI G RFS+SLS LPAR+FQHE+DHL+G+LFF+RMTD V
Sbjct: 92  LSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQV 151
Query: 121 LDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGK 161
           LDSIRE+LEALEKKYE+KTGL SPE++EA ++RKA VGFGK
Sbjct: 152 LDSIREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFGK 192
>pdb|3M6Q|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) G41q Mutant In Complex With Actinonin Length = 193 Back     alignment and structure
>pdb|3M6R|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) G41m Mutant In Complex With Actinonin Length = 193 Back     alignment and structure
>pdb|3CPM|A Chain A, Plant Peptide Deformylase Pdf1b Crystal Structure Length = 193 Back     alignment and structure
>pdb|1RL4|A Chain A, Plasmodium Falciparum Peptide Deformylase Complex With Inhibitor Length = 188 Back     alignment and structure
>pdb|4DR9|A Chain A, Crystal Structure Of A Peptide Deformylase From Synechococcus Elongatus In Complex With Actinonin Length = 192 Back     alignment and structure
>pdb|1RQC|A Chain A, Crystals Of Peptide Deformylase From Plasmodium Falciparum With Ten Subunits Per Asymmetric Unit Reveal Critical Characteristics Of The Active Site For Drug Design Length = 185 Back     alignment and structure
>pdb|1JYM|A Chain A, Crystals Of Peptide Deformylase From Plasmodium Falciparum With Ten Subunits Per Asymmetric Unit Reveal Critical Characteristics Of The Active Site For Drug Design Length = 183 Back     alignment and structure
>pdb|3UWA|A Chain A, Crystal Structure Of A Probable Peptide Deformylase From Synechococcus Phage S-Ssm7 Length = 154 Back     alignment and structure
>pdb|1Y6H|A Chain A, Crystal Structure Of Lipdf Length = 177 Back     alignment and structure
>pdb|1N5N|A Chain A, Crystal Structure Of Peptide Deformylase From Pseudomonas Aeruginosa Length = 180 Back     alignment and structure
>pdb|1LRY|A Chain A, Crystal Structure Of P. Aeruginosa Peptide Deformylase Complexed With Antibiotic Actinonin Length = 167 Back     alignment and structure
>pdb|1IX1|A Chain A, Crystal Structure Of P.Aeruginosa Peptide Deformylase Complexed With Antibiotic Actinonin Length = 171 Back     alignment and structure
>pdb|1SZZ|A Chain A, Crystal Structure Of Peptide Deformylase From Leptospira Interrogans Complexed With Inhibitor Actinonin Length = 177 Back     alignment and structure
>pdb|3QU1|A Chain A, Peptide Deformylase From Vibrio Cholerae Length = 171 Back     alignment and structure
>pdb|1WS0|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus Cereus Length = 156 Back     alignment and structure
>pdb|1LME|A Chain A, Crystal Structure Of Peptide Deformylase From Thermotoga Maritima Length = 176 Back     alignment and structure
>pdb|1V3Y|A Chain A, The Crystal Structure Of Peptide Deformylase From Thermus Thermophilus Hb8 Length = 192 Back     alignment and structure
>pdb|2W3T|A Chain A, Chloro Complex Of The Ni-Form Of E.Coli Deformylase Length = 188 Back     alignment and structure
>pdb|4AL2|A Chain A, Peptide Deformylase (Ni-Form) With Hydrosulfide Length = 186 Back     alignment and structure
>pdb|3K6L|A Chain A, The Structure Of E.Coli Peptide Deformylase (Pdf) In Complex With Peptidomimetic Ligand Bb2827 Length = 169 Back     alignment and structure
>pdb|1ICJ|A Chain A, Pdf Protein Is Crystallized As Ni2+ Containing Form, Cocrystallized With Inhibitor Polyethylene Glycol (Peg) Length = 168 Back     alignment and structure
>pdb|4AZ4|A Chain A, E.Coli Deformylase With Co(Ii) And Hydrosulfide Length = 186 Back     alignment and structure
>pdb|1DFF|A Chain A, Peptide Deformylase Length = 164 Back     alignment and structure
>pdb|2EW5|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In Complex With Inhibitor Length = 181 Back     alignment and structure
>pdb|2DEF|A Chain A, Peptide Deformylase Catalytic Core (Residues 1-147), Nmr, 20 Structures Length = 147 Back     alignment and structure
>pdb|1DEF|A Chain A, Peptide Deformylase Catalytic Core (Residues 1-147), Nmr, 9 Structures Length = 147 Back     alignment and structure
>pdb|1ZXZ|A Chain A, X-Ray Structure Of Peptide Deformylase From Arabidopsis Thaliana (Atpdf1a); Crystals Grown In Peg-5000 Mme As Precipitant Length = 197 Back     alignment and structure
>pdb|4AL3|A Chain A, Peptide Deformylase (Co-Form) With Mercaptoethanol Length = 186 Back     alignment and structure
>pdb|3OCA|A Chain A, Crystal Structure Of Peptide Deformylase From Ehrlichia Chaffeensis Length = 209 Back     alignment and structure
>pdb|3U04|A Chain A, Crystal Structure Of Peptide Deformylase From Ehrlichia Chaffeensis In Complex With Actinonin Length = 190 Back     alignment and structure
>pdb|3FWX|A Chain A, The Crystal Structure Of The Peptide Deformylase From Vibrio Cholerae O1 Biovar El Tor Str. N16961 Length = 169 Back     alignment and structure
>pdb|1LQW|A Chain A, Crystal Structure Of S.Aureus Peptide Deformylase Length = 183 Back     alignment and structure
>pdb|1LMH|A Chain A, Crystal Structure Of S. Aureus Peptide Deformylase Length = 184 Back     alignment and structure
>pdb|3G5K|A Chain A, Structure And Activity Of Human Mitochondrial Peptide Deformylase, A Novel Cancer Target Length = 183 Back     alignment and structure
>pdb|1Q1Y|A Chain A, Crystal Structures Of Peptide Deformylase From Staphylococcus Aureus Complexed With Actinonin Length = 191 Back     alignment and structure
>pdb|1LM4|A Chain A, Structure Of Peptide Deformylase From Staphylococcus Aureus At 1.45 A Length = 194 Back     alignment and structure
>pdb|3DLD|A Chain A, Crystal Structure Of Peptide Deformylase, Xoo1075, From Xanthomonas Oryzae Pv. Oryzae Kacc10331 Length = 171 Back     alignment and structure
>pdb|2OKL|A Chain A, Crystal Structure Of Peptide Deformylase 2 With Actinonin From Bacillus Cereus Length = 185 Back     alignment and structure
>pdb|1LQY|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Peptide Deformylase Complexed With Antibiotic Actinonin Length = 184 Back     alignment and structure
>pdb|3E3U|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Peptide Deformylase In Complex With Inhibitor Length = 197 Back     alignment and structure
>pdb|3G6N|A Chain A, Crystal Structure Of An Efpdf Complex With Met-Ala-Ser Length = 191 Back     alignment and structure
>pdb|2OS3|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E. Faecalis And S. Pyogenes Length = 205 Back     alignment and structure
>pdb|3CMD|A Chain A, Crystal Structure Of Peptide Deformylase From Vre-E.Faecium Length = 196 Back     alignment and structure
>pdb|3STR|P Chain P, Strep Peptide Deformylase With A Time Dependent Thiazolidine Hydroxamic Acid Length = 203 Back     alignment and structure
>pdb|2AI7|A Chain A, S.Pneumoniae Polypeptide Deformylase Complexed With Sb- 485345 Length = 203 Back     alignment and structure
>pdb|2AIE|P Chain P, S.Pneumoniae Polypeptide Deformylase Complexed With Sb- 505684 Length = 203 Back     alignment and structure
>pdb|2OS1|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E. Faecalis And S. Pyogenes Length = 188 Back     alignment and structure
>pdb|1LM6|A Chain A, Crystal Structure Of Peptide Deformylase From Streptococcus Pneumoniae Length = 215 Back     alignment and structure
>pdb|3SVJ|P Chain P, Strep Peptide Deformylase With A Time Dependent Thiazolidine Amide Length = 203 Back     alignment and structure
>pdb|2OS0|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E. Faecalis And S. Pyogenes Length = 188 Back     alignment and structure
>pdb|3L87|A Chain A, The Crystal Structure Of Smu.143c From Streptococcus Mutans Ua159 Length = 238 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 ?
Query162
3pn3_A193 Peptide deformylase 1B, chloroplastic; PDF, N-term 6e-69
1rl4_A188 Formylmethionine deformylase; crystal engineering, 2e-51
1y6h_A177 Peptide deformylase; open and close conformation, 6e-49
3dld_A171 Peptide deformylase; bacterial blight, XOO1075, xa 8e-48
3g5k_A183 Peptide deformylase, mitochondrial; actinonin, hyd 7e-47
1zxz_A197 PDF, peptide deformylase, mitochondrial; PDF1A, eu 2e-46
1lme_A176 PDF, peptide deformylase; thermophIle, metalloenzy 2e-45
2okl_A185 Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1. 8e-45
3e3u_A197 Peptide deformylase; metallo-enzyme, hydrolase, ir 3e-44
1n5n_A180 Peptide deformylase; metalloenzyme, drug design, d 5e-44
1v3y_A192 Peptide deformylase; protein synthesis, riken stru 1e-43
2ew5_A181 Peptide deformylase; inhibitor, hydrolase; HET: Y1 2e-43
1ws0_A156 Peptide deformylase 1; alpha + beta topology, hydr 2e-43
3svj_P203 Peptide deformylase 3; alpha-beta, metal binding p 3e-43
1xeo_A168 Peptide deformylase; cobalt deformylase, formate, 8e-43
2w3t_A188 Peptide deformylase; protein biosynthesis, iron, n 2e-42
3u04_A190 Peptide deformylase 1; ssgcid, actinonin, ehrlichi 8e-42
2os0_A188 Peptide deformylase; PDF, hydrolase; 1.30A {Entero 8e-42
3qu1_A171 Peptide deformylase 2; structural genomics, center 3e-41
3l87_A238 Peptide deformylase; hydrolase, iron, metal-bindin 2e-40
1lm4_A194 Peptide deformylase PDF1; metalloenzyme, hydrolase 2e-38
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision pathway, N induced-FIT, hydrolase-hydrolase inhibitor complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB: 3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A 3pn6_A 3m6r_A 3cpm_A Length = 193 Back     alignment and structure
 Score =  206 bits (526), Expect = 6e-69
 Identities = 126/161 (78%), Positives = 150/161 (93%)

Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGC 60
           MFDVMYKTDGIGLSAPQVG+NVQLMVFNP GE GEG+EIVLVNP++ KYS+K++P++EGC
Sbjct: 32  MFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGC 91

Query: 61  LSFPGIHADVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDV 120
           LSFPGI+A+V RP+SVKIDARDI G RFS+SLS LPAR+FQHE+DHL+G+LFF+RMTD V
Sbjct: 92  LSFPGIYAEVVRPQSVKIDARDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQV 151

Query: 121 LDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFGK 161
           LDSIRE+LEALEKKYE+KTGL SPE++EA ++RKA VGFGK
Sbjct: 152 LDSIREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFGK 192
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design, malaria, PDF, peptide DEFO plasmodium, hydrolase; HET: BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1 PDB: 1rqc_A 1jym_A Length = 188 Back     alignment and structure
>1y6h_A Peptide deformylase; open and close conformation, PDF, hydrolase; 2.20A {Leptospira interrogans} SCOP: d.167.1.1 PDB: 1sv2_A* 1vey_A* 1vev_A 1vez_A 1szz_A* Length = 177 Back     alignment and structure
>3dld_A Peptide deformylase; bacterial blight, XOO1075, xanthomonas oryzae PV. oryzae KACC10331, hydrolase; 2.60A {Xanthomonas oryzae PV} Length = 171 Back     alignment and structure
>3g5k_A Peptide deformylase, mitochondrial; actinonin, hydrolase, iron, metal-bindi mitochondrion, protein biosynthesis, transit peptide; HET: BB2; 1.70A {Homo sapiens} PDB: 3g5p_A Length = 183 Back     alignment and structure
>1zxz_A PDF, peptide deformylase, mitochondrial; PDF1A, eukaryote, higher plant, zinc ION, hydrolase; 2.80A {Arabidopsis thaliana} PDB: 1zy0_A 1zy1_A Length = 197 Back     alignment and structure
>1lme_A PDF, peptide deformylase; thermophIle, metalloenzyme, deformylation, structural genomics, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: d.167.1.1 Length = 176 Back     alignment and structure
>2okl_A Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1.70A {Bacillus cereus} PDB: 1lqy_A* Length = 185 Back     alignment and structure
>3e3u_A Peptide deformylase; metallo-enzyme, hydrolase, iron, metal-binding, protein biosynthesis; HET: NVC; 1.56A {Mycobacterium tuberculosis} Length = 197 Back     alignment and structure
>1n5n_A Peptide deformylase; metalloenzyme, drug design, deformylation, hydrolase; 1.80A {Pseudomonas aeruginosa} SCOP: d.167.1.1 PDB: 1s17_A* 1ix1_A* 1lry_A* Length = 180 Back     alignment and structure
>1v3y_A Peptide deformylase; protein synthesis, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP: d.167.1.1 Length = 192 Back     alignment and structure
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A {Helicobacter pylori} PDB: 2ew6_A* 2ew7_A Length = 181 Back     alignment and structure
>1ws0_A Peptide deformylase 1; alpha + beta topology, hydrolase; 1.70A {Bacillus cereus} PDB: 1ws1_A* Length = 156 Back     alignment and structure
>3svj_P Peptide deformylase 3; alpha-beta, metal binding protein, HYDR hydrolase inhibitor complex; HET: 4LI; 1.55A {Streptococcus pneumoniae} PDB: 3str_P* 3sw8_P* 1lm6_A 2aia_A* 2ai7_A* 2aie_P* 2os3_A* Length = 203 Back     alignment and structure
>1xeo_A Peptide deformylase; cobalt deformylase, formate, hydrolase; 1.30A {Escherichia coli} SCOP: d.167.1.1 PDB: 1bs5_A 1bs6_A 1bs7_A 1bs8_A 1bsj_A* 1bsk_A* 1bsz_A* 1g27_A* 1bs4_A* 1icj_A* 1lru_A* 1xem_A 1xen_A 1g2a_A 2ai8_A* 4al3_A 4al2_A 3k6l_A* 1dff_A 1def_A ... Length = 168 Back     alignment and structure
>2w3t_A Peptide deformylase; protein biosynthesis, iron, nickel, hydrolase, metal-binding; 1.69A {Escherichia coli} PDB: 2w3u_A Length = 188 Back     alignment and structure
>3u04_A Peptide deformylase 1; ssgcid, actinonin, ehrlichia chaffeensi structural genomics; HET: BB2; 1.70A {Ehrlichia chaffeensis} PDB: 3oca_A Length = 190 Back     alignment and structure
>2os0_A Peptide deformylase; PDF, hydrolase; 1.30A {Enterococcus faecalis} PDB: 2os1_A* 3g6n_A 3cmd_A Length = 188 Back     alignment and structure
>3qu1_A Peptide deformylase 2; structural genomics, center for structural genomics of infec diseases, csgid, metal binding; 1.80A {Vibrio cholerae} Length = 171 Back     alignment and structure
>3l87_A Peptide deformylase; hydrolase, iron, metal-binding, PR biosynthesis; 2.00A {Streptococcus mutans} Length = 238 Back     alignment and structure
>1lm4_A Peptide deformylase PDF1; metalloenzyme, hydrolase; 1.45A {Staphylococcus aureus} SCOP: d.167.1.1 PDB: 1lqw_A 2ai9_A 1lmh_A 1q1y_A* Length = 194 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query162
3pn3_A193 Peptide deformylase 1B, chloroplastic; PDF, N-term 100.0
3u04_A190 Peptide deformylase 1; ssgcid, actinonin, ehrlichi 100.0
1xeo_A168 Peptide deformylase; cobalt deformylase, formate, 100.0
1n5n_A180 Peptide deformylase; metalloenzyme, drug design, d 100.0
3qu1_A171 Peptide deformylase 2; structural genomics, center 100.0
1rl4_A188 Formylmethionine deformylase; crystal engineering, 100.0
2w3t_A188 Peptide deformylase; protein biosynthesis, iron, n 100.0
2ew5_A181 Peptide deformylase; inhibitor, hydrolase; HET: Y1 100.0
1lme_A176 PDF, peptide deformylase; thermophIle, metalloenzy 100.0
1v3y_A192 Peptide deformylase; protein synthesis, riken stru 100.0
3e3u_A197 Peptide deformylase; metallo-enzyme, hydrolase, ir 100.0
1y6h_A177 Peptide deformylase; open and close conformation, 100.0
3uwb_A154 RIIA-RIIB membrane-associated protein; actinonin, 100.0
4dr9_A192 Peptide deformylase; hydrolase-hydrolase inhibitor 100.0
3dld_A171 Peptide deformylase; bacterial blight, XOO1075, xa 100.0
1ws0_A156 Peptide deformylase 1; alpha + beta topology, hydr 100.0
3g5k_A183 Peptide deformylase, mitochondrial; actinonin, hyd 100.0
1zxz_A197 PDF, peptide deformylase, mitochondrial; PDF1A, eu 100.0
2okl_A185 Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1. 100.0
2os0_A188 Peptide deformylase; PDF, hydrolase; 1.30A {Entero 100.0
1lm4_A194 Peptide deformylase PDF1; metalloenzyme, hydrolase 100.0
3svj_P203 Peptide deformylase 3; alpha-beta, metal binding p 100.0
3l87_A238 Peptide deformylase; hydrolase, iron, metal-bindin 100.0
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision pathway, N induced-FIT, hydrolase-hydrolase inhibitor complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB: 3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A 3pn6_A 3m6r_A 3cpm_A Back     alignment and structure
Probab=100.00  E-value=5.4e-63  Score=398.97  Aligned_cols=162  Identities=78%  Similarity=1.296  Sum_probs=143.9

Q ss_pred             CHHhhhcCCCeeEeccccCccccEEEEecCCCCCCCceeEEEcceEEeeCCceeecccccCCcCCCceeeccCCeEEEEE
Q 031280            1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA   80 (162)
Q Consensus         1 m~~tM~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~INP~Iv~~s~~~~~~~EgCLS~pg~~~~V~R~~~I~V~y   80 (162)
                      |++|||+++||||||||||+++|+||++..+..++..+.+||||+|++.|+++...+|||||+||+++.|+||.+|+|+|
T Consensus        32 M~eTM~~a~GvGLAApQIGv~~Ri~Vid~~~~~~~~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~V~~  111 (193)
T 3pn3_A           32 MFDVMYKTDGIGLSAPQVGLNVQLMVFNPAGEPGEGKEIVLVNPKIKKYSDKLVPFDEGCLSFPGIYAEVVRPQSVKIDA  111 (193)
T ss_dssp             HHHHHHHTTCSEEEGGGGTCCBSEEEECTTCSTTSSCCEEEEEEEEEEECSCEEEEEECCTTSTTCCEEEEEESCEEEEE
T ss_pred             HHHHHHHCCCeEEEccccCcceEEEEEECCCCcCCcccEEEECCEEEecCCcEEEeecccccCCCCCCcCcCCCEEEEEE
Confidence            89999999999999999999999999998754434468999999999999998889999999999999999999999999


Q ss_pred             EcCCCCEEEEEEecchhhhHHhhhhhhCCceeeecCCHHHHHHHHHHHHHHHHhhHhhcCCCChHHHHHHHhhhhccccC
Q 031280           81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEKKYEDKTGLQSPEKIEASKRRKAAVGFG  160 (162)
Q Consensus        81 ~d~~G~~~~~~~~G~~Ar~~QHEiDHL~Gil~~Drl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (162)
                      +|++|++++++++||+|||||||+|||+|+||+||+++.++.++.+++++++++|+.++++|+||.|..++.+|+++|||
T Consensus       112 ~D~~G~~~~~~~~G~~Ar~iQHEiDHL~GiLfiDrl~~~kr~~~~~k~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (193)
T 3pn3_A          112 RDITGERFSISLSRLPARIFQHEYDHLEGVLFFDRMTDQVLDSIREELEALEKKYEEKTGLPSPERVEARQKRKAGVGFG  191 (193)
T ss_dssp             ECTTSCEEEEEECHHHHHHHHHHHHHHTTCCGGGGSCHHHHHTTHHHHHHHHHHHHHHHSSCCSSCGGGC----------
T ss_pred             EcCCCCEEEEEEEChhhhhhhHHHHHhCCEeeeeecCHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHhhhhhhhccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CC
Q 031280          161 KS  162 (162)
Q Consensus       161 ~~  162 (162)
                      ||
T Consensus       192 ~~  193 (193)
T 3pn3_A          192 KR  193 (193)
T ss_dssp             --
T ss_pred             CC
Confidence            98
>3u04_A Peptide deformylase 1; ssgcid, actinonin, ehrlichia chaffeensi structural genomics; HET: BB2; 1.70A {Ehrlichia chaffeensis} SCOP: d.167.1.0 PDB: 3oca_A Back     alignment and structure
>1xeo_A Peptide deformylase; cobalt deformylase, formate, hydrolase; 1.30A {Escherichia coli} SCOP: d.167.1.1 PDB: 1bs5_A 1bs6_A 1bs7_A 1bs8_A 1bsj_A* 1bsk_A* 1bsz_A* 1g27_A* 1bs4_A* 1icj_A* 1lru_A* 1xem_A 1xen_A 1g2a_A 2ai8_A* 4al3_A 4al2_A 3k6l_A* 1dff_A 1def_A ... Back     alignment and structure
>1n5n_A Peptide deformylase; metalloenzyme, drug design, deformylation, hydrolase; 1.80A {Pseudomonas aeruginosa} SCOP: d.167.1.1 PDB: 1s17_A* 1ix1_A* 1lry_A* Back     alignment and structure
>3qu1_A Peptide deformylase 2; structural genomics, center for structural genomics of infec diseases, csgid, metal binding; 1.80A {Vibrio cholerae} SCOP: d.167.1.0 Back     alignment and structure
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design, malaria, PDF, peptide DEFO plasmodium, hydrolase; HET: BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1 PDB: 1rqc_A 1jym_A Back     alignment and structure
>2w3t_A Peptide deformylase; protein biosynthesis, iron, nickel, hydrolase, metal-binding; 1.69A {Escherichia coli} PDB: 2w3u_A Back     alignment and structure
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A {Helicobacter pylori} PDB: 2ew6_A* 2ew7_A Back     alignment and structure
>1lme_A PDF, peptide deformylase; thermophIle, metalloenzyme, deformylation, structural genomics, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: d.167.1.1 Back     alignment and structure
>1v3y_A Peptide deformylase; protein synthesis, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP: d.167.1.1 Back     alignment and structure
>3e3u_A Peptide deformylase; metallo-enzyme, hydrolase, iron, metal-binding, protein biosynthesis; HET: NVC; 1.56A {Mycobacterium tuberculosis} Back     alignment and structure
>1y6h_A Peptide deformylase; open and close conformation, PDF, hydrolase; 2.20A {Leptospira interrogans} SCOP: d.167.1.1 PDB: 1sv2_A* 1vey_A* 1vev_A 1vez_A 1szz_A* Back     alignment and structure
>3uwb_A RIIA-RIIB membrane-associated protein; actinonin, probable peptide deformylase hydrolase-antibiotic complex; HET: BB2; 1.70A {Synechococcus phage s-ssm7} PDB: 3uwa_A* Back     alignment and structure
>4dr9_A Peptide deformylase; hydrolase-hydrolase inhibitor complex; HET: BB2; 1.90A {Synechococcus elongatus} Back     alignment and structure
>3dld_A Peptide deformylase; bacterial blight, XOO1075, xanthomonas oryzae PV. oryzae KACC10331, hydrolase; 2.60A {Xanthomonas oryzae PV} SCOP: d.167.1.0 Back     alignment and structure
>1ws0_A Peptide deformylase 1; alpha + beta topology, hydrolase; 1.70A {Bacillus cereus} PDB: 1ws1_A* Back     alignment and structure
>3g5k_A Peptide deformylase, mitochondrial; actinonin, hydrolase, iron, metal-bindi mitochondrion, protein biosynthesis, transit peptide; HET: BB2; 1.70A {Homo sapiens} PDB: 3g5p_A Back     alignment and structure
>1zxz_A PDF, peptide deformylase, mitochondrial; PDF1A, eukaryote, higher plant, zinc ION, hydrolase; 2.80A {Arabidopsis thaliana} PDB: 1zy0_A 1zy1_A Back     alignment and structure
>2okl_A Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1.70A {Bacillus cereus} PDB: 1lqy_A* Back     alignment and structure
>2os0_A Peptide deformylase; PDF, hydrolase; 1.30A {Enterococcus faecalis} PDB: 2os1_A* 3g6n_A 3cmd_A Back     alignment and structure
>1lm4_A Peptide deformylase PDF1; metalloenzyme, hydrolase; 1.45A {Staphylococcus aureus} SCOP: d.167.1.1 PDB: 1lqw_A 2ai9_A 1lmh_A 1q1y_A* Back     alignment and structure
>3svj_P Peptide deformylase 3; alpha-beta, metal binding protein, HYDR hydrolase inhibitor complex; HET: 4LI; 1.55A {Streptococcus pneumoniae} SCOP: d.167.1.1 PDB: 3str_P* 3sw8_P* 4eox_P* 1lm6_A 2aia_A* 2ai7_A* 2aie_P* 2os3_A* Back     alignment and structure
>3l87_A Peptide deformylase; hydrolase, iron, metal-binding, PR biosynthesis; 2.00A {Streptococcus mutans} 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 162
d1v3ya_182 d.167.1.1 (A:) Peptide deformylase {Thermus thermo 8e-32
d1y6ha_177 d.167.1.1 (A:) Peptide deformylase {Leptospira int 2e-30
d1lmea_154 d.167.1.1 (A:) Peptide deformylase {Thermotoga mar 8e-25
d1ix1a_169 d.167.1.1 (A:) Peptide deformylase {Pseudomonas ae 2e-24
d1rl4a_165 d.167.1.1 (A:) Peptide deformylase {Malaria parasi 2e-23
d1lm6a_202 d.167.1.1 (A:) Peptide deformylase {Streptococcus 1e-22
d1xeoa1164 d.167.1.1 (A:1-164) Peptide deformylase {Escherich 1e-22
d1lqya_184 d.167.1.1 (A:) Peptide deformylase {Bacillus stear 5e-22
d1lm4a_194 d.167.1.1 (A:) Peptide deformylase {Staphylococcus 7e-21
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus [TaxId: 274]} Length = 182 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Peptide deformylase
superfamily: Peptide deformylase
family: Peptide deformylase
domain: Peptide deformylase
species: Thermus thermophilus [TaxId: 274]

 Score =  110 bits (275), Expect = 8e-32
 Identities = 50/149 (33%), Positives = 81/149 (54%), Gaps = 11/149 (7%)

Query: 1   MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEE----------IVLVNPRVNKYS 50
           M + M++  G+GL+APQ+G++ +L V     +  EGEE          + +V   V  Y 
Sbjct: 33  MLETMFEAKGVGLAAPQIGLSQRLFVAVEYADEPEGEEERPLRELVRRVYVVANPVITYR 92

Query: 51  NKMIPYEEGCLSFPGIHA-DVERPESVKIDARDINGARFSVSLSDLPARVFQHEFDHLQG 109
             ++   EGCLS PG+++ +V R E ++++ +D  G    + L    ARVFQHE DHL G
Sbjct: 93  EGLVEGTEGCLSLPGLYSEEVPRAERIRVEYQDEEGRGRVLELEGYMARVFQHEIDHLDG 152

Query: 110 ILFFERMTDDVLDSIREQLEALEKKYEDK 138
           ILFFER+     ++  E   A   +++ +
Sbjct: 153 ILFFERLPKPKREAFLEANRAELVRFQKE 181
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans [TaxId: 173]} Length = 177 Back     information, alignment and structure
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima [TaxId: 2336]} Length = 154 Back     information, alignment and structure
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa [TaxId: 287]} Length = 169 Back     information, alignment and structure
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]} Length = 165 Back     information, alignment and structure
>d1lm6a_ d.167.1.1 (A:) Peptide deformylase {Streptococcus pneumoniae [TaxId: 1313]} Length = 202 Back     information, alignment and structure
>d1xeoa1 d.167.1.1 (A:1-164) Peptide deformylase {Escherichia coli [TaxId: 562]} Length = 164 Back     information, alignment and structure
>d1lqya_ d.167.1.1 (A:) Peptide deformylase {Bacillus stearothermophilus [TaxId: 1422]} Length = 184 Back     information, alignment and structure
>d1lm4a_ d.167.1.1 (A:) Peptide deformylase {Staphylococcus aureus [TaxId: 1280]} Length = 194 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 ?
Query162
d1xeoa1164 Peptide deformylase {Escherichia coli [TaxId: 562] 100.0
d1ix1a_169 Peptide deformylase {Pseudomonas aeruginosa [TaxId 100.0
d1rl4a_165 Peptide deformylase {Malaria parasite (Plasmodium 100.0
d1y6ha_177 Peptide deformylase {Leptospira interrogans [TaxId 100.0
d1lmea_154 Peptide deformylase {Thermotoga maritima [TaxId: 2 100.0
d1v3ya_182 Peptide deformylase {Thermus thermophilus [TaxId: 100.0
d1lqya_184 Peptide deformylase {Bacillus stearothermophilus [ 100.0
d1lm6a_202 Peptide deformylase {Streptococcus pneumoniae [Tax 100.0
d1lm4a_194 Peptide deformylase {Staphylococcus aureus [TaxId: 100.0
>d1xeoa1 d.167.1.1 (A:1-164) Peptide deformylase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Peptide deformylase
superfamily: Peptide deformylase
family: Peptide deformylase
domain: Peptide deformylase
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=3.9e-52  Score=325.87  Aligned_cols=130  Identities=41%  Similarity=0.653  Sum_probs=121.7

Q ss_pred             CHHhhhcCCCeeEeccccCccccEEEEecCCCCCCCceeEEEcceEEeeCCceeecccccCCcCCCceeeccCCeEEEEE
Q 031280            1 MFDVMYKTDGIGLSAPQVGINVQLMVFNPVGERGEGEEIVLVNPRVNKYSNKMIPYEEGCLSFPGIHADVERPESVKIDA   80 (162)
Q Consensus         1 m~~tM~~~~gvGLAApQIG~~~ri~vi~~~~~~~~~~~~v~INP~Iv~~s~~~~~~~EgCLS~pg~~~~V~R~~~I~V~y   80 (162)
                      |++||++++|+||||||||+++|+||++..+..  ..+.+||||+|++.|+.. ..+|||||+||+.+.|+||.+|+|+|
T Consensus        34 m~~tm~~~~GvGLAApQIG~~~rifvv~~~~~~--~~~~v~iNP~I~~~~~~~-~~~EgCLS~Pg~~~~V~R~~~I~v~y  110 (164)
T d1xeoa1          34 MFETMYAEEGIGLAATQVDIHQRIIVIDVSENR--DERLVLINPELLEKSGET-GIEEGCLSIPEQRALVPRAEKVKIRA  110 (164)
T ss_dssp             HHHHHHHTTCSEEEGGGGTCCBSEEEECCCTTS--CCCEEEEEEEEEEEECCB-CCEECCTTSTTCCEECCBCSEEEEEE
T ss_pred             HHHHhhhcCcceeeehhhccccceEEEEeeccc--CceEEecCcEEeeeccee-eecCCcccccccccccccccEEEEEE
Confidence            789999999999999999999999999886543  357899999999988774 68999999999999999999999999


Q ss_pred             EcCCCCEEEEEEecchhhhHHhhhhhhCCceeeecCCHHHHHHHHHHHHHHHH
Q 031280           81 RDINGARFSVSLSDLPARVFQHEFDHLQGILFFERMTDDVLDSIREQLEALEK  133 (162)
Q Consensus        81 ~d~~G~~~~~~~~G~~Ar~~QHEiDHL~Gil~~Drl~~~~~~~~~~~~~~~~~  133 (162)
                      +|++|++++.+++||.|||||||+|||+|+||+||+++..+..+.++++++++
T Consensus       111 ~d~~G~~~~~~~~g~~Ar~~QHEiDHL~Gilf~Dr~~~~~~~~~~kk~~k~~r  163 (164)
T d1xeoa1         111 LDRDGKPFELEADGLLAICIQHEMDHLVGKLFMDYLSPLKQQRIRQKVEKLDR  163 (164)
T ss_dssp             ECTTSCEEEEEECHHHHHHHHHHHHHHTTCCGGGGSCHHHHHHHHHHHHHHHH
T ss_pred             EcCCCCEEEEEEeeeeeehHHHHHHHhCCEehhhhcCHHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999998764
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]} Back     information, alignment and structure
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans [TaxId: 173]} Back     information, alignment and structure
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1lqya_ d.167.1.1 (A:) Peptide deformylase {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1lm6a_ d.167.1.1 (A:) Peptide deformylase {Streptococcus pneumoniae [TaxId: 1313]} Back     information, alignment and structure
>d1lm4a_ d.167.1.1 (A:) Peptide deformylase {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure