Citrus Sinensis ID: 024519

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-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260------
MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHRKARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEGCPKLGVHEP
ccccccccccEEEccccccccccccEEEEccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccEEEEccccccccEEEEEEEcccccccccHHHHHHHccccccccEEEccEEEEccccccccccccccccccccEEcccccEEEEEEcccccEEEEEEEcEEEEEEEccccccccEEEEEccccccHHHHHHHHccccccccccccccc
cHHHHHHHHHHHHHHHHHHccccccEEEccccccccccccccccccccccccccccHHHccccEHccccccccccHHHEEcccccHccccccccccccccHHHHHHHHHHHHHHHHccccEEEHHHHcccEcEEEEEEEccccccccHHHHHHccccccccEEEEEEEEEEccccEEEEEEEEccEEEEEEEccEccEEEEEEEcccccEEEEEEEHHHHHHHHHHHHHcccccHHHHccHHHHHHHHHHHHHHHHcccccccccc
MEAIHRFSVCHLPICLakrhiksapiilcptrklvsspdfsndvtfsphrkarttsaiskagwllglgqnkkaklpeivqagdpvlheparevdpgeigsERIQNIIDDMVKVMrsapgvglaapqigvplRIIVLEDTKEYISYQSKEEikafdrrpfdllmilnpklkkksdrtaLFFEGCLSVNGYRAVVERYLDIEvtgldrdgqpikvdATGWQARILQHECdhldgtlyvdkmvpkTFRIVEnldlplaegcpklgvhep
MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVtfsphrkarttsaiskagwlLGLGQNKKAKLPEIVQagdpvlheparevdpgeigsERIQNIIDDMVKVMRSAPgvglaapqigvplRIIVLEDTKEYISYQSkeeikafdrrpfDLLMILnpklkkksdrTALFFegclsvngyraVVERYLDIEvtgldrdgqpiKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLdlplaegcpklgvhep
MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHRKARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEGCPKLGVHEP
***IHRFSVCHLPICLAKRHIKSAPIILCPTRKLVS********************AISKAGWLLGLGQNKKAKLPEIV**********************RIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEGCP*******
********VCHLPICLAKRHIKSAPIILCPTRKLV**********************************NKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISY********FDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPL************
MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHRKARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEGCPKLGVHEP
*EAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHRKARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEG***L*****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHRKARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPLAEGCPKLGVHEP
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 ?
Query266 2.2.26 [Sep-21-2011]
Q9FUZ0277 Peptide deformylase 1A, c N/A no 0.800 0.768 0.746 6e-92
Q9FV53269 Peptide deformylase 1A, c yes no 0.954 0.944 0.656 3e-91
B6RGY0260 Peptide deformylase 1A, c yes no 0.703 0.719 0.759 5e-82
Q7NJV3227 Peptide deformylase 1 OS= no no 0.657 0.770 0.474 2e-38
Q825U9224 Peptide deformylase 3 OS= yes no 0.665 0.790 0.413 2e-30
Q8G534217 Peptide deformylase 1 OS= yes no 0.650 0.797 0.422 3e-30
Q9HBH1243 Peptide deformylase, mito yes no 0.624 0.683 0.398 8e-30
Q9RD27218 Peptide deformylase 1 OS= yes no 0.582 0.711 0.419 2e-28
A1A2Z1218 Peptide deformylase OS=Bi yes no 0.654 0.798 0.4 1e-27
Q826Q0186 Peptide deformylase 2 OS= no no 0.530 0.758 0.424 2e-24
>sp|Q9FUZ0|DEF1A_SOLLC Peptide deformylase 1A, chloroplastic OS=Solanum lycopersicum GN=PDF1A PE=2 SV=1 Back     alignment and function desciption
 Score =  337 bits (864), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 159/213 (74%), Positives = 189/213 (88%)

Query: 51  KARTTSAISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDM 110
           K   +SA ++AGW LGLG+ KK  +P+IV+AGDPVLHEP++++   EIGSERIQ II++M
Sbjct: 64  KKNYSSATARAGWFLGLGEKKKQAMPDIVKAGDPVLHEPSQDIPLEEIGSERIQKIIEEM 123

Query: 111 VKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLK 170
           VKVMR+APGVGLAAPQIG+PL+IIVLEDT EYISY  K+E KA DRRPF LL+I+NPKLK
Sbjct: 124 VKVMRNAPGVGLAAPQIGIPLKIIVLEDTNEYISYAPKDETKAQDRRPFGLLVIINPKLK 183

Query: 171 KKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHL 230
           KK ++TALFFEGCLSV+G+RAVVER+L++EVTGLDR+G+ IKVDA+GWQARILQHE DHL
Sbjct: 184 KKGNKTALFFEGCLSVDGFRAVVERHLEVEVTGLDRNGKAIKVDASGWQARILQHEYDHL 243

Query: 231 DGTLYVDKMVPKTFRIVENLDLPLAEGCPKLGV 263
           DGTLYVDKM P+TFR VENLDLPLA GCPKLGV
Sbjct: 244 DGTLYVDKMAPRTFRTVENLDLPLAAGCPKLGV 276
Removes the formyl group from the N-terminal Met of newly synthesized proteins.
Solanum lycopersicum (taxid: 4081)
EC: 3EC: .EC: 5EC: .EC: 1EC: .EC: 8EC: 8
>sp|Q9FV53|DEF1A_ARATH Peptide deformylase 1A, chloroplastic OS=Arabidopsis thaliana GN=PDF1A PE=1 SV=3 Back     alignment and function description
>sp|B6RGY0|DEF1A_ORYSJ Peptide deformylase 1A, chloroplastic OS=Oryza sativa subsp. japonica GN=PDF1A PE=2 SV=1 Back     alignment and function description
>sp|Q7NJV3|DEF1_GLOVI Peptide deformylase 1 OS=Gloeobacter violaceus (strain PCC 7421) GN=def1 PE=3 SV=1 Back     alignment and function description
>sp|Q825U9|DEF3_STRAW Peptide deformylase 3 OS=Streptomyces avermitilis (strain ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680) GN=def3 PE=3 SV=1 Back     alignment and function description
>sp|Q8G534|DEF1_BIFLO Peptide deformylase 1 OS=Bifidobacterium longum (strain NCC 2705) GN=def1 PE=3 SV=1 Back     alignment and function description
>sp|Q9HBH1|DEFM_HUMAN Peptide deformylase, mitochondrial OS=Homo sapiens GN=PDF PE=1 SV=1 Back     alignment and function description
>sp|Q9RD27|DEF1_STRCO Peptide deformylase 1 OS=Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=def1 PE=3 SV=1 Back     alignment and function description
>sp|A1A2Z1|DEF_BIFAA Peptide deformylase OS=Bifidobacterium adolescentis (strain ATCC 15703 / DSM 20083 / NCTC 11814 / E194a) GN=def PE=3 SV=1 Back     alignment and function description
>sp|Q826Q0|DEF2_STRAW Peptide deformylase 2 OS=Streptomyces avermitilis (strain ATCC 31267 / DSM 46492 / JCM 5070 / NCIMB 12804 / NRRL 8165 / MA-4680) GN=def2 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 ?
Query266
255553123266 polypeptide deformylase, putative [Ricin 0.988 0.988 0.745 1e-109
224054132299 peptide deformylase [Populus trichocarpa 0.984 0.876 0.723 1e-105
449484173267 PREDICTED: peptide deformylase 1A, chlor 0.981 0.977 0.711 1e-103
317106741274 JHL06P13.18 [Jatropha curcas] 0.992 0.963 0.689 1e-103
449468998267 PREDICTED: LOW QUALITY PROTEIN: peptide 0.981 0.977 0.707 1e-103
225442881277 PREDICTED: peptide deformylase 1A, chlor 0.981 0.942 0.653 1e-95
356526200252 PREDICTED: peptide deformylase 1A, chlor 0.936 0.988 0.657 1e-91
350535372277 peptide deformylase 1A, chloroplastic [S 0.800 0.768 0.746 3e-90
18394237269 peptide deformylase 1A [Arabidopsis thal 0.954 0.944 0.656 2e-89
297844442270 hypothetical protein ARALYDRAFT_334826 [ 0.954 0.940 0.657 2e-89
>gi|255553123|ref|XP_002517604.1| polypeptide deformylase, putative [Ricinus communis] gi|223543236|gb|EEF44768.1| polypeptide deformylase, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  400 bits (1028), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 199/267 (74%), Positives = 224/267 (83%), Gaps = 4/267 (1%)

Query: 1   MEAIHRFSVCHLPICLAKRHIKSA---PIILCPTRKLVSSPDFSNDVTFSPHRKARTTSA 57
           ME +HRFS+  LPI LA + +K     PI    TR  +S PDF   + +S  RK+ ++S+
Sbjct: 1   METLHRFSLRLLPISLADKCLKPTKHHPIYRL-TRIPISKPDFRTTIPYSITRKSLSSSS 59

Query: 58  ISKAGWLLGLGQNKKAKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSA 117
           I+KAGWLLGLG+NKK  LP+IV+AGDPVLHEPAREVDP EIGSERIQ IIDDMVKVMR A
Sbjct: 60  IAKAGWLLGLGENKKMSLPDIVKAGDPVLHEPAREVDPDEIGSERIQKIIDDMVKVMRRA 119

Query: 118 PGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTA 177
           PGVGLAAPQIGVPLRIIVLEDT EYI Y  KEE KA DRRPFDLL+ILNPKLKKK +RTA
Sbjct: 120 PGVGLAAPQIGVPLRIIVLEDTTEYIGYAPKEETKAQDRRPFDLLVILNPKLKKKGNRTA 179

Query: 178 LFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVD 237
           LFFEGCLSV+G+RAVVER L++EV+GLDR GQPIKVDA+GWQARILQHECDHLDGTLYVD
Sbjct: 180 LFFEGCLSVDGFRAVVERSLEVEVSGLDRSGQPIKVDASGWQARILQHECDHLDGTLYVD 239

Query: 238 KMVPKTFRIVENLDLPLAEGCPKLGVH 264
           KMVP+TFR V+NLDLPLAEGCP LG  
Sbjct: 240 KMVPRTFRTVDNLDLPLAEGCPNLGAQ 266

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224054132|ref|XP_002298107.1| peptide deformylase [Populus trichocarpa] gi|222845365|gb|EEE82912.1| peptide deformylase [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449484173|ref|XP_004156806.1| PREDICTED: peptide deformylase 1A, chloroplastic-like isoform 1 [Cucumis sativus] Back     alignment and taxonomy information
>gi|317106741|dbj|BAJ53237.1| JHL06P13.18 [Jatropha curcas] Back     alignment and taxonomy information
>gi|449468998|ref|XP_004152208.1| PREDICTED: LOW QUALITY PROTEIN: peptide deformylase 1A, chloroplastic-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225442881|ref|XP_002281834.1| PREDICTED: peptide deformylase 1A, chloroplastic [Vitis vinifera] gi|297743418|emb|CBI36285.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|356526200|ref|XP_003531707.1| PREDICTED: peptide deformylase 1A, chloroplastic-like [Glycine max] Back     alignment and taxonomy information
>gi|350535372|ref|NP_001234703.1| peptide deformylase 1A, chloroplastic [Solanum lycopersicum] gi|17433049|sp|Q9FUZ0.1|DEF1A_SOLLC RecName: Full=Peptide deformylase 1A, chloroplastic; Short=PDF 1A; AltName: Full=Polypeptide deformylase; Flags: Precursor gi|11320968|gb|AAG33981.1|AF271258_1 peptide deformylase-like protein [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|18394237|ref|NP_563974.1| peptide deformylase 1A [Arabidopsis thaliana] gi|334302914|sp|Q9FV53.3|DEF1A_ARATH RecName: Full=Peptide deformylase 1A, chloroplastic; Short=AtDEF1; Short=AtPDF1A; Short=PDF 1A; AltName: Full=Polypeptide deformylase; Flags: Precursor gi|11320952|gb|AAG33973.1|AF250959_1 peptide deformylase-like protein [Arabidopsis thaliana] gi|332191194|gb|AEE29315.1| peptide deformylase 1A [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297844442|ref|XP_002890102.1| hypothetical protein ARALYDRAFT_334826 [Arabidopsis lyrata subsp. lyrata] gi|297335944|gb|EFH66361.1| hypothetical protein ARALYDRAFT_334826 [Arabidopsis lyrata subsp. lyrata] 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 ?
Query266
TAIR|locus:2037733269 PDF1A "peptide deformylase 1A" 0.954 0.944 0.660 1.3e-84
ZFIN|ZDB-GENE-050913-42247 pdf "peptide deformylase (mito 0.853 0.919 0.391 1.5e-37
FB|FBgn0051373196 CG31373 [Drosophila melanogast 0.687 0.933 0.439 2.8e-34
UNIPROTKB|F1S391221 PDF "Uncharacterized protein" 0.627 0.755 0.415 2.9e-32
RGD|1582894231 Pdf "peptide deformylase (mito 0.620 0.714 0.408 6e-32
RGD|2321990255 LOC100363967 "peptide deformyl 0.620 0.647 0.408 6e-32
UNIPROTKB|F1N5S7230 PDF "Uncharacterized protein" 0.635 0.734 0.402 9.8e-32
UNIPROTKB|J9NUA4245 PDF "Uncharacterized protein" 0.635 0.689 0.390 4.2e-31
UNIPROTKB|Q9HBH1243 PDF "Peptide deformylase, mito 0.624 0.683 0.398 1.6e-29
FB|FBgn0051278238 CG31278 [Drosophila melanogast 0.680 0.760 0.408 3.9e-28
TAIR|locus:2037733 PDF1A "peptide deformylase 1A" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 847 (303.2 bits), Expect = 1.3e-84, P = 1.3e-84
 Identities = 175/265 (66%), Positives = 208/265 (78%)

Query:     1 MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSNDVTFSPHR-KARTTSAIS 59
             ME + R S+  LP+        SA +     R  VS P  S+ +    +     ++S++S
Sbjct:    11 METLFRVSLRLLPV--------SAAVTCRSIRFPVSRPGSSHLLNRKLYNLPTSSSSSLS 62

Query:    60 -KAGWLLGLGQNKK-AKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSA 117
              KAGWLLGLG+ KK   LPEIV +GDPVLHE AREVDPGEIGSERIQ IIDDM+KVMR A
Sbjct:    63 TKAGWLLGLGEKKKKVDLPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLA 122

Query:   118 PGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTA 177
             PGVGLAAPQIGVPLRIIVLEDTKEYISY  KEEI A +RR FDL++++NP LK++S++ A
Sbjct:   123 PGVGLAAPQIGVPLRIIVLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKA 182

Query:   178 LFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVD 237
             LFFEGCLSV+G+RA VERYL++ VTG DR G+ I+V+A+GWQARILQHECDHLDG LYVD
Sbjct:   183 LFFEGCLSVDGFRAAVERYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVD 242

Query:   238 KMVPKTFRIVENLDLPLAEGCPKLG 262
             KMVP+TFR V+NLDLPLAEGCPKLG
Sbjct:   243 KMVPRTFRTVDNLDLPLAEGCPKLG 267
GO:0005506 "iron ion binding" evidence=IEA
GO:0005739 "mitochondrion" evidence=ISM;IDA
GO:0006412 "translation" evidence=ISS
GO:0042586 "peptide deformylase activity" evidence=IEA;ISS;IDA
GO:0043686 "co-translational protein modification" evidence=IDA
GO:0009505 "plant-type cell wall" evidence=IDA
GO:0009507 "chloroplast" evidence=IDA
ZFIN|ZDB-GENE-050913-42 pdf "peptide deformylase (mitochondrial)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
FB|FBgn0051373 CG31373 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|F1S391 PDF "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1582894 Pdf "peptide deformylase (mitochondrial)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
RGD|2321990 LOC100363967 "peptide deformylase-like protein-like" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1N5S7 PDF "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|J9NUA4 PDF "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q9HBH1 PDF "Peptide deformylase, mitochondrial" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
FB|FBgn0051278 CG31278 [Drosophila melanogaster (taxid:7227)] 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) ?
B6RGY0DEF1A_ORYSJ3, ., 5, ., 1, ., 8, 80.75930.70300.7192yesno
Q9FUZ0DEF1A_SOLLC3, ., 5, ., 1, ., 8, 80.74640.80070.7689N/Ano
Q9FV53DEF1A_ARATH3, ., 5, ., 1, ., 8, 80.65660.95480.9442yesno

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 Layer3.5.10.976
3rd Layer3.5.1.880.991

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 ?
Query266
pfam01327155 pfam01327, Pep_deformylase, Polypeptide deformylas 1e-64
cd00487141 cd00487, Pep_deformylase, Polypeptide or peptide d 4e-62
PRK00150165 PRK00150, def, peptide deformylase; Reviewed 3e-59
PRK12846165 PRK12846, PRK12846, peptide deformylase; Reviewed 5e-55
COG0242168 COG0242, Def, N-formylmethionyl-tRNA deformylase [ 5e-53
TIGR00079161 TIGR00079, pept_deformyl, peptide deformylase 5e-32
PRK14597166 PRK14597, PRK14597, peptide deformylase; Provision 3e-30
PRK14596199 PRK14596, PRK14596, peptide deformylase; Provision 7e-28
PRK14598187 PRK14598, PRK14598, peptide deformylase; Provision 4e-27
PRK09218136 PRK09218, PRK09218, peptide deformylase; Validated 1e-21
PRK14595162 PRK14595, PRK14595, peptide deformylase; Provision 2e-11
>gnl|CDD|216435 pfam01327, Pep_deformylase, Polypeptide deformylase Back     alignment and domain information 
 Score =  198 bits (506), Expect = 1e-64
 Identities = 68/169 (40%), Positives = 95/169 (56%), Gaps = 16/169 (9%)

Query: 77  EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
            IV   DPVL + A+ V+  E   E ++ +IDDM++ M +A GVGLAAPQIGV  RI V+
Sbjct: 3   PIVTYPDPVLRQKAKPVE--EFDDEELKELIDDMLETMYAANGVGLAAPQIGVSKRIFVI 60

Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
           +   E             D  P  L++I NP++   S+ T    EGCLSV G R  VER 
Sbjct: 61  DVGDE-------------DGEPEPLVLI-NPEIISASEETVEGEEGCLSVPGLRGEVERP 106

Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFR 245
             I V   D +G   +++A G+ AR+LQHE DHL+G L++D++      
Sbjct: 107 KRITVRYQDLNGNEHELEADGFLARVLQHEIDHLNGILFLDRLSKLKRL 155

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|237227 PRK12846, PRK12846, 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|232815 TIGR00079, pept_deformyl, peptide deformylase Back     alignment and domain information
>gnl|CDD|237761 PRK14597, PRK14597, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|184758 PRK14596, PRK14596, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|237762 PRK14598, PRK14598, peptide deformylase; Provisional Back     alignment and domain information
>gnl|CDD|181704 PRK09218, PRK09218, peptide deformylase; Validated Back     alignment and domain information
>gnl|CDD|184757 PRK14595, PRK14595, peptide deformylase; 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 266
KOG3137267 consensus Peptide deformylase [Translation, riboso 100.0
COG0242168 Def N-formylmethionyl-tRNA deformylase [Translatio 100.0
PRK12846165 peptide deformylase; Reviewed 100.0
PRK14595162 peptide deformylase; Provisional 100.0
PRK00150165 def peptide deformylase; Reviewed 100.0
PRK14597166 peptide deformylase; Provisional 100.0
TIGR00079161 pept_deformyl peptide deformylase. Peptide deformy 100.0
PF01327156 Pep_deformylase: Polypeptide deformylase; InterPro 100.0
PRK14598187 peptide deformylase; Provisional 100.0
PRK14596199 peptide deformylase; Provisional 100.0
cd00487141 Pep_deformylase Polypeptide or peptide deformylase 100.0
PRK09218136 peptide deformylase; Validated 100.0
COG4740176 Predicted metalloprotease [General function predic 96.95
>KOG3137 consensus Peptide deformylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=3.5e-65  Score=450.54  Aligned_cols=256  Identities=36%  Similarity=0.513  Sum_probs=232.4

Q ss_pred             CccccccccccccccccccccccCCccccccccccCCCCCCC-CCccccccccchhhHHHhhhhhhccCCC-Cccccccc
Q 024519            1 MEAIHRFSVCHLPICLAKRHIKSAPIILCPTRKLVSSPDFSN-DVTFSPHRKARTTSAISKAGWLLGLGQN-KKAKLPEI   78 (266)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~m~~~~I   78 (266)
                      |+.|.|.|+++||.+.+-.|..        .+.++|.+.+.. .|.+...-.|.+++.....+|.++++++ ++.+..+|
T Consensus        10 a~~l~risL~~L~~~a~~~~~~--------~~~~vs~~~s~~~~nr~~~~~~s~r~s~~r~~r~~l~lg~~~~~~~~~~i   81 (267)
T KOG3137|consen   10 APPLSRISLPVLSRRATTLSAG--------YGRLVSTVTSCSTVNRTSPLTSSVRASVKRVSRKDLKLGSATDVETPLKI   81 (267)
T ss_pred             cchhhhhhhhhhhhhhcccccc--------ccceecccccccccCccCCCcchhhHHHHHHhhhhcccCCcccCCChHHh
Confidence            6889999999999999888855        455555554322 2333333337778888999999999996 44677899


Q ss_pred             cccCcccccccccccCCCCCCCHHHHHHHHHHHHHHHhCCceeEecccCCccceEEEEecCchhhccchhHHHhhhcCCC
Q 024519           79 VQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKAFDRRP  158 (266)
Q Consensus        79 v~~gdPvLr~~a~~V~~~~i~~~el~~li~dM~~tM~~~~GvGLAAPQIGv~~rifVv~~~~~~~~~~~~e~~~~~~~~~  158 (266)
                      +++|||+||.+|++|++.+|.++++|+|+++|+++|+..+||||||||||++.|++|++....++++-++++...+++++
T Consensus        82 v~~gDPVLr~ka~~Vdraqig~e~lq~lvd~m~~VMr~~~gVGLsAPQvGvp~q~~vle~~~alcrecP~~~ra~rqmep  161 (267)
T KOG3137|consen   82 VEYGDPVLRAKAKRVDRAQIGDENLQNLVDAMFDVMRKTDGVGLSAPQVGVPVQLMVLEPAGALCRECPEPGRAERQMEP  161 (267)
T ss_pred             hccCCHhhhhccccCChhhcCCHHHHHHHHHHHHHHHhCCCccccCcccCCceEEEEecChHHHHhcCCChhhhHhhccC
Confidence            99999999999999999899999999999999999999999999999999999999999999999998888877888999


Q ss_pred             CCeEEEEcCeeEecCCceecCcccCCccCCCceeeccccceEEEEECCCCCeEEEEEcchhhhHHhhhhhhcCceeeeec
Q 024519          159 FDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDK  238 (266)
Q Consensus       159 ~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~V~y~D~~G~~~~~~~~G~~AR~~QHEiDHL~GiLfiDr  238 (266)
                      ++..||+||++.++|+..+.+.||||||||++|.|+||..|.|+++|.+|+.+++.++||.|||||||||||+|.||+||
T Consensus       162 f~l~V~VNP~lk~~s~klv~F~EGClSv~Gf~A~V~R~q~V~i~g~D~~Ger~~~~aSgw~ARI~QHE~DHL~G~Lf~Dk  241 (267)
T KOG3137|consen  162 FKLIVLVNPKLKKYSDKLVPFDEGCLSVPGFYAEVVRPQSVKIDGRDITGERFSISASGWPARIFQHEYDHLEGVLFFDK  241 (267)
T ss_pred             CCeEEEecchHhhhcccccccccccccccchhhcccccceEEEeeecCCCCEEEEecccchHHHHHhHhhhhcceeeeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhHHhhhhccCCccccCCCCCCCC
Q 024519          239 MVPKTFRIVENLDLPLAEGCPKLGVH  264 (266)
Q Consensus       239 l~~~~~~~~~~~~~~~~~~c~~~~~~  264 (266)
                      |++++|+++.+++++++++||++|++
T Consensus       242 M~~rtf~~V~~~~~~l~~~~~~~~~~  267 (267)
T KOG3137|consen  242 MTDRTFDSVREELEALEKKYEEKTGL  267 (267)
T ss_pred             cccHhHhHHHHhhhhhhhccccccCC
Confidence            99999999999999999999999874

>COG0242 Def N-formylmethionyl-tRNA deformylase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK12846 peptide deformylase; Reviewed Back     alignment and domain information
>PRK14595 peptide deformylase; Provisional Back     alignment and domain information
>PRK00150 def peptide deformylase; Reviewed Back     alignment and domain information
>PRK14597 peptide deformylase; Provisional Back     alignment and domain information
>TIGR00079 pept_deformyl peptide deformylase 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
>PRK14598 peptide deformylase; Provisional 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
>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 ?
Query266
1zxz_A197 X-Ray Structure Of Peptide Deformylase From Arabido 1e-85
3g5k_A183 Structure And Activity Of Human Mitochondrial Pepti 9e-31
1szz_A177 Crystal Structure Of Peptide Deformylase From Lepto 8e-25
1y6h_A177 Crystal Structure Of Lipdf Length = 177 9e-25
1n5n_A180 Crystal Structure Of Peptide Deformylase From Pseud 1e-21
1ix1_A171 Crystal Structure Of P.Aeruginosa Peptide Deformyla 2e-21
1lry_A167 Crystal Structure Of P. Aeruginosa Peptide Deformyl 2e-21
3dld_A171 Crystal Structure Of Peptide Deformylase, Xoo1075, 3e-21
3m6o_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 7e-21
3cpm_A193 Plant Peptide Deformylase Pdf1b Crystal Structure L 2e-20
4az4_A186 E.Coli Deformylase With Co(Ii) And Hydrosulfide Len 2e-20
4al2_A186 Peptide Deformylase (Ni-Form) With Hydrosulfide Len 2e-20
2w3t_A188 Chloro Complex Of The Ni-Form Of E.Coli Deformylase 3e-20
3k6l_A169 The Structure Of E.Coli Peptide Deformylase (Pdf) I 4e-20
1icj_A168 Pdf Protein Is Crystallized As Ni2+ Containing Form 4e-20
1dff_A164 Peptide Deformylase Length = 164 4e-20
3m6q_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 5e-20
3m6r_A193 Crystal Structure Of Arabidopsis Thaliana Peptide D 7e-20
3qu1_A171 Peptide Deformylase From Vibrio Cholerae Length = 1 8e-20
4dr9_A192 Crystal Structure Of A Peptide Deformylase From Syn 3e-19
2def_A147 Peptide Deformylase Catalytic Core (Residues 1-147) 4e-19
1def_A147 Peptide Deformylase Catalytic Core (Residues 1-147) 4e-19
4al3_A186 Peptide Deformylase (Co-Form) With Mercaptoethanol 5e-19
3oca_A209 Crystal Structure Of Peptide Deformylase From Ehrli 1e-18
3u04_A190 Crystal Structure Of Peptide Deformylase From Ehrli 1e-18
3e3u_A197 Crystal Structure Of Mycobacterium Tuberculosis Pep 4e-18
3uwa_A154 Crystal Structure Of A Probable Peptide Deformylase 7e-18
3fwx_A169 The Crystal Structure Of The Peptide Deformylase Fr 6e-17
2ew5_A181 Structure Of Helicobacter Pylori Peptide Deformylas 6e-17
1rl4_A188 Plasmodium Falciparum Peptide Deformylase Complex W 2e-16
1v3y_A192 The Crystal Structure Of Peptide Deformylase From T 1e-14
1rqc_A185 Crystals Of Peptide Deformylase From Plasmodium Fal 1e-13
1lme_A176 Crystal Structure Of Peptide Deformylase From Therm 2e-13
1lqy_A184 Crystal Structure Of Bacillus Stearothermophilus Pe 4e-13
2okl_A185 Crystal Structure Of Peptide Deformylase 2 With Act 1e-12
1ws0_A156 Structure Analysis Of Peptide Deformylase From Baci 1e-11
1jym_A183 Crystals Of Peptide Deformylase From Plasmodium Fal 1e-11
2os3_A205 Structures Of Actinonin Bound Peptide Deformylases 3e-11
3str_P203 Strep Peptide Deformylase With A Time Dependent Thi 3e-11
2ai7_A203 S.Pneumoniae Polypeptide Deformylase Complexed With 4e-11
2aie_P203 S.Pneumoniae Polypeptide Deformylase Complexed With 8e-11
1lqw_A183 Crystal Structure Of S.Aureus Peptide Deformylase L 3e-10
3svj_P203 Strep Peptide Deformylase With A Time Dependent Thi 6e-10
1lm6_A215 Crystal Structure Of Peptide Deformylase From Strep 7e-10
2os1_A188 Structures Of Actinonin Bound Peptide Deformylases 1e-09
3cmd_A196 Crystal Structure Of Peptide Deformylase From Vre-E 2e-09
3g6n_A191 Crystal Structure Of An Efpdf Complex With Met-Ala- 2e-09
1lm4_A194 Structure Of Peptide Deformylase From Staphylococcu 7e-09
1q1y_A191 Crystal Structures Of Peptide Deformylase From Stap 7e-09
1lmh_A184 Crystal Structure Of S. Aureus Peptide Deformylase 8e-09
2os0_A188 Structures Of Actinonin Bound Peptide Deformylases 9e-09
3l87_A238 The Crystal Structure Of Smu.143c From Streptococcu 4e-07
>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 
Iteration: 1

 Score =  312 bits (799), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 149/188 (79%), Positives = 170/188 (90%)
Query: 75  LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRII 134
           LPEIV +GDPVLHE AREVDPGEIGSERIQ IIDDM+KVMR APGVGLAAPQIGVPLRII
Sbjct: 3   LPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPGVGLAAPQIGVPLRII 62
Query: 135 VLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
           VLEDTKEYISY  KEEI A +RR FDL++++NP LK++S++ ALFFEGCLSV+G+RA VE
Sbjct: 63  VLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKALFFEGCLSVDGFRAAVE 122
Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPL 254
           RYL++ VTG DR G+ I+V+A+GWQARILQHECDHLDG LYVDKMVP+TFR V+NLDLPL
Sbjct: 123 RYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVDKMVPRTFRTVDNLDLPL 182
Query: 255 AEGCPKLG 262
           AEGCPKLG
Sbjct: 183 AEGCPKLG 190
>pdb|3G5K|A Chain A, Structure And Activity Of Human Mitochondrial Peptide Deformylase, A Novel Cancer Target Length = 183 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|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|1IX1|A Chain A, Crystal Structure Of P.Aeruginosa Peptide Deformylase Complexed With Antibiotic Actinonin Length = 171 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|3DLD|A Chain A, Crystal Structure Of Peptide Deformylase, Xoo1075, From Xanthomonas Oryzae Pv. Oryzae Kacc10331 Length = 171 Back     alignment and structure
>pdb|3M6O|A Chain A, Crystal Structure Of Arabidopsis Thaliana Peptide Deformylase 1b (Atpdf1b) Length = 193 Back     alignment and structure
>pdb|3CPM|A Chain A, Plant Peptide Deformylase Pdf1b Crystal Structure Length = 193 Back     alignment and structure
>pdb|4AZ4|A Chain A, E.Coli Deformylase With Co(Ii) And Hydrosulfide Length = 186 Back     alignment and structure
>pdb|4AL2|A Chain A, Peptide Deformylase (Ni-Form) With Hydrosulfide Length = 186 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|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|1DFF|A Chain A, Peptide Deformylase Length = 164 Back     alignment and structure
>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|3QU1|A Chain A, Peptide Deformylase From Vibrio Cholerae Length = 171 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|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|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|3E3U|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Peptide Deformylase In Complex With Inhibitor Length = 197 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|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|2EW5|A Chain A, Structure Of Helicobacter Pylori Peptide Deformylase In Complex With Inhibitor Length = 181 Back     alignment and structure
>pdb|1RL4|A Chain A, Plasmodium Falciparum Peptide Deformylase Complex With Inhibitor Length = 188 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|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|1LME|A Chain A, Crystal Structure Of Peptide Deformylase From Thermotoga Maritima Length = 176 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|2OKL|A Chain A, Crystal Structure Of Peptide Deformylase 2 With Actinonin From Bacillus Cereus Length = 185 Back     alignment and structure
>pdb|1WS0|A Chain A, Structure Analysis Of Peptide Deformylase From Bacillus Cereus Length = 156 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|2OS3|A Chain A, Structures Of Actinonin Bound Peptide Deformylases From E. Faecalis And S. Pyogenes Length = 205 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|1LQW|A Chain A, Crystal Structure Of S.Aureus Peptide Deformylase Length = 183 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|1LM6|A Chain A, Crystal Structure Of Peptide Deformylase From Streptococcus Pneumoniae Length = 215 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|3CMD|A Chain A, Crystal Structure Of Peptide Deformylase From Vre-E.Faecium Length = 196 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|1LM4|A Chain A, Structure Of Peptide Deformylase From Staphylococcus Aureus At 1.45 A Length = 194 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|1LMH|A Chain A, Crystal Structure Of S. Aureus Peptide Deformylase Length = 184 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 ?
Query266
1zxz_A197 PDF, peptide deformylase, mitochondrial; PDF1A, eu 1e-91
3g5k_A183 Peptide deformylase, mitochondrial; actinonin, hyd 3e-85
3dld_A171 Peptide deformylase; bacterial blight, XOO1075, xa 1e-64
1y6h_A177 Peptide deformylase; open and close conformation, 4e-64
3e3u_A197 Peptide deformylase; metallo-enzyme, hydrolase, ir 4e-56
3u04_A190 Peptide deformylase 1; ssgcid, actinonin, ehrlichi 3e-52
2os0_A188 Peptide deformylase; PDF, hydrolase; 1.30A {Entero 4e-51
1rl4_A188 Formylmethionine deformylase; crystal engineering, 4e-51
3svj_P203 Peptide deformylase 3; alpha-beta, metal binding p 8e-51
3pn3_A193 Peptide deformylase 1B, chloroplastic; PDF, N-term 1e-50
1ws0_A156 Peptide deformylase 1; alpha + beta topology, hydr 2e-50
3l87_A238 Peptide deformylase; hydrolase, iron, metal-bindin 4e-50
1lme_A176 PDF, peptide deformylase; thermophIle, metalloenzy 5e-50
1n5n_A180 Peptide deformylase; metalloenzyme, drug design, d 2e-49
1v3y_A192 Peptide deformylase; protein synthesis, riken stru 4e-49
2ew5_A181 Peptide deformylase; inhibitor, hydrolase; HET: Y1 8e-49
1lm4_A194 Peptide deformylase PDF1; metalloenzyme, hydrolase 5e-48
2okl_A185 Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1. 8e-48
1xeo_A168 Peptide deformylase; cobalt deformylase, formate, 1e-47
2w3t_A188 Peptide deformylase; protein biosynthesis, iron, n 4e-47
3qu1_A171 Peptide deformylase 2; structural genomics, center 1e-45
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-04
>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
 Score =  267 bits (686), Expect = 1e-91
 Identities = 150/190 (78%), Positives = 171/190 (90%)

Query: 75  LPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRII 134
           LPEIV +GDPVLHE AREVDPGEIGSERIQ IIDDM+KVMR APGVGLAAPQIGVPLRII
Sbjct: 3   LPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPGVGLAAPQIGVPLRII 62

Query: 135 VLEDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVE 194
           VLEDTKEYISY  KEEI A +RR FDL++++NP LK++S++ ALFFEGCLSV+G+RA VE
Sbjct: 63  VLEDTKEYISYAPKEEILAQERRHFDLMVMVNPVLKERSNKKALFFEGCLSVDGFRAAVE 122

Query: 195 RYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVPKTFRIVENLDLPL 254
           RYL++ VTG DR G+ I+V+A+GWQARILQHECDHLDG LYVDKMVP+TFR V+NLDLPL
Sbjct: 123 RYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDGNLYVDKMVPRTFRTVDNLDLPL 182

Query: 255 AEGCPKLGVH 264
           AEGCPKLG H
Sbjct: 183 AEGCPKLGSH 192
>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
>3dld_A Peptide deformylase; bacterial blight, XOO1075, xanthomonas oryzae PV. oryzae KACC10331, hydrolase; 2.60A {Xanthomonas oryzae PV} Length = 171 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
>3e3u_A Peptide deformylase; metallo-enzyme, hydrolase, iron, metal-binding, protein biosynthesis; HET: NVC; 1.56A {Mycobacterium tuberculosis} Length = 197 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
>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
>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
>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
>1ws0_A Peptide deformylase 1; alpha + beta topology, hydrolase; 1.70A {Bacillus cereus} PDB: 1ws1_A* Length = 156 Back     alignment and structure
>3l87_A Peptide deformylase; hydrolase, iron, metal-binding, PR biosynthesis; 2.00A {Streptococcus mutans} Length = 238 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
>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
>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
>2okl_A Peptide deformylase 2; hydrolase; HET: BB2 CIT; 1.70A {Bacillus cereus} PDB: 1lqy_A* Length = 185 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
>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
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query266
1zxz_A197 PDF, peptide deformylase, mitochondrial; PDF1A, eu 100.0
3g5k_A183 Peptide deformylase, mitochondrial; actinonin, hyd 100.0
3u04_A190 Peptide deformylase 1; ssgcid, actinonin, ehrlichi 100.0
3dld_A171 Peptide deformylase; bacterial blight, XOO1075, xa 100.0
4dr9_A192 Peptide deformylase; hydrolase-hydrolase inhibitor 100.0
1ws0_A156 Peptide deformylase 1; alpha + beta topology, hydr 100.0
1n5n_A180 Peptide deformylase; metalloenzyme, drug design, d 100.0
3uwb_A154 RIIA-RIIB membrane-associated protein; actinonin, 100.0
1y6h_A177 Peptide deformylase; open and close conformation, 100.0
1xeo_A168 Peptide deformylase; cobalt deformylase, formate, 100.0
3qu1_A171 Peptide deformylase 2; structural genomics, center 100.0
3e3u_A197 Peptide deformylase; metallo-enzyme, hydrolase, ir 100.0
1rl4_A188 Formylmethionine deformylase; crystal engineering, 100.0
1lme_A176 PDF, peptide deformylase; thermophIle, metalloenzy 100.0
3pn3_A193 Peptide deformylase 1B, chloroplastic; PDF, N-term 100.0
2w3t_A188 Peptide deformylase; protein biosynthesis, iron, n 100.0
2ew5_A181 Peptide deformylase; inhibitor, hydrolase; HET: Y1 100.0
1v3y_A192 Peptide deformylase; protein synthesis, riken stru 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
3svj_P203 Peptide deformylase 3; alpha-beta, metal binding p 100.0
1lm4_A194 Peptide deformylase PDF1; metalloenzyme, hydrolase 100.0
3l87_A238 Peptide deformylase; hydrolase, iron, metal-bindin 100.0
>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
Probab=100.00  E-value=1.2e-63  Score=438.66  Aligned_cols=193  Identities=78%  Similarity=1.280  Sum_probs=170.0

Q ss_pred             cccccccccCcccccccccccCCCCCCCHHHHHHHHHHHHHHHhCCceeEecccCCccceEEEEecCchhhccchhHHHh
Q 024519           73 AKLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIK  152 (266)
Q Consensus        73 m~~~~Iv~~gdPvLr~~a~~V~~~~i~~~el~~li~dM~~tM~~~~GvGLAAPQIGv~~rifVv~~~~~~~~~~~~e~~~  152 (266)
                      |++++|+++|||+||++|++|+..++.++++++|++||++||++++||||||||||+++|||||+...++.++.+++..+
T Consensus         1 M~~~~I~~~gdpvLr~~a~~V~~~~~~~~~l~~Li~dM~eTM~~~~GVGLAApQIGv~~Ri~Vid~~~~~~~~~~~~~~~   80 (197)
T 1zxz_A            1 MDLPEIVASGDPVLHEKAREVDPGEIGSERIQKIIDDMIKVMRLAPGVGLAAPQIGVPLRIIVLEDTKEYISYAPKEEIL   80 (197)
T ss_dssp             -CCCCCCCTTSGGGTSCCBCCCTTTTTSHHHHHHHHHHHHHHHHTTCSEEEGGGGTCCBSEEEEEECHHHHHSSCHHHHH
T ss_pred             CCccCcccCCCHHHhcCceeCCcccCCCHHHHHHHHHHHHHHHhCCCcEEEccccCcceEEEEEEcCccccccccccccc
Confidence            78899999999999999999986556679999999999999999999999999999999999998653322222222222


Q ss_pred             hhcCCCCCeEEEEcCeeEecCCceecCcccCCccCCCceeeccccceEEEEECCCCCeEEEEEcchhhhHHhhhhhhcCc
Q 024519          153 AFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDG  232 (266)
Q Consensus       153 ~~~~~~~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~V~y~D~~G~~~~~~~~G~~AR~~QHEiDHL~G  232 (266)
                      ..+..+.++.+||||+|+..|+++...+|||||+||+++.|+||.+|+|+|+|++|++++++++||+|||||||||||+|
T Consensus        81 ~~~~~~~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~V~~~D~~G~~~~~~~~G~~Ar~iQHEiDHL~G  160 (197)
T 1zxz_A           81 AQERRHFDLMVMVNPVLKERSNKKALFFEGCLSVDGFRAAVERYLEVVVTGYDRQGKRIEVNASGWQARILQHECDHLDG  160 (197)
T ss_dssp             HTTCCCEEEEEEEEEEEEESSSCEEEEEEEETTEEEEEEEEEEESEEEEEEECTTCCEEEEEEEHHHHHHHHHHHHHHTT
T ss_pred             ccccCCCCceEEECCEEEecCCCEEeeeeCCcccCCeeeeEecccEEEEEEECCCCCEEEEEEeChhhhHHHHHHHHhCC
Confidence            22233334689999999999998878899999999999999999999999999999999999999999999999999999


Q ss_pred             eeeeecCChhHHhhhhccCCccccCCCCCCCCC
Q 024519          233 TLYVDKMVPKTFRIVENLDLPLAEGCPKLGVHE  265 (266)
Q Consensus       233 iLfiDrl~~~~~~~~~~~~~~~~~~c~~~~~~~  265 (266)
                      +||+||+++++++.+++++.+++..||++|.|.
T Consensus       161 iLfiDrl~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (197)
T 1zxz_A          161 NLYVDKMVPRTFRTVDNLDLPLAEGCPKLGSHH  193 (197)
T ss_dssp             CCGGGTBCTTCCEEGGGTTSCCCTTCCCSEECC
T ss_pred             EeeeeecCHHHHHHHHHHhhccccCCCcccccc
Confidence            999999999999999999999999999999874
>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
>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
>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
>4dr9_A Peptide deformylase; hydrolase-hydrolase inhibitor complex; HET: BB2; 1.90A {Synechococcus elongatus} Back     alignment and structure
>1ws0_A Peptide deformylase 1; alpha + beta topology, hydrolase; 1.70A {Bacillus cereus} PDB: 1ws1_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
>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
>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
>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
>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
>3e3u_A Peptide deformylase; metallo-enzyme, hydrolase, iron, metal-binding, protein biosynthesis; HET: NVC; 1.56A {Mycobacterium tuberculosis} 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
>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
>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
>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
>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
>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
>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
>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
>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 266
d1y6ha_177 d.167.1.1 (A:) Peptide deformylase {Leptospira int 3e-40
d1v3ya_182 d.167.1.1 (A:) Peptide deformylase {Thermus thermo 4e-36
d1lm6a_202 d.167.1.1 (A:) Peptide deformylase {Streptococcus 7e-32
d1lmea_154 d.167.1.1 (A:) Peptide deformylase {Thermotoga mar 2e-31
d1lqya_184 d.167.1.1 (A:) Peptide deformylase {Bacillus stear 1e-30
d1lm4a_194 d.167.1.1 (A:) Peptide deformylase {Staphylococcus 4e-28
d1ix1a_169 d.167.1.1 (A:) Peptide deformylase {Pseudomonas ae 3e-27
d1xeoa1164 d.167.1.1 (A:1-164) Peptide deformylase {Escherich 2e-26
d1rl4a_165 d.167.1.1 (A:) Peptide deformylase {Malaria parasi 3e-26
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans [TaxId: 173]} Length = 177 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: Leptospira interrogans [TaxId: 173]

 Score =  135 bits (340), Expect = 3e-40
 Identities = 66/176 (37%), Positives = 94/176 (53%), Gaps = 10/176 (5%)

Query: 77  EIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVL 136
           +I++ GDP+L + +  V   EI ++  + +I DM   MR A GVGLAAPQIG+  +I+V 
Sbjct: 4   KILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVV- 62

Query: 137 EDTKEYISYQSKEEIKAFDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERY 196
                     S++  +          +ILNP +   +  T+ F+EGCLSV G R  VER 
Sbjct: 63  --------VGSEDNERYPGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVERP 114

Query: 197 LDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGTLYVDKMVP-KTFRIVENLD 251
             I +  +D  G        G++A + QHECDHL G LYVD++   K F   E LD
Sbjct: 115 NQIRMQWMDEKGNQFDETIDGYKAIVYQHECDHLQGILYVDRLKDTKLFGFNETLD 170
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus [TaxId: 274]} Length = 182 Back     information, alignment and structure
>d1lm6a_ d.167.1.1 (A:) Peptide deformylase {Streptococcus pneumoniae [TaxId: 1313]} Length = 202 Back     information, alignment and structure
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima [TaxId: 2336]} Length = 154 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
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa [TaxId: 287]} Length = 169 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
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]} Length = 165 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 ?
Query266
d1y6ha_177 Peptide deformylase {Leptospira interrogans [TaxId 100.0
d1lmea_154 Peptide deformylase {Thermotoga maritima [TaxId: 2 100.0
d1xeoa1164 Peptide deformylase {Escherichia coli [TaxId: 562] 100.0
d1ix1a_169 Peptide deformylase {Pseudomonas aeruginosa [TaxId 100.0
d1lqya_184 Peptide deformylase {Bacillus stearothermophilus [ 100.0
d1rl4a_165 Peptide deformylase {Malaria parasite (Plasmodium 100.0
d1v3ya_182 Peptide deformylase {Thermus thermophilus [TaxId: 100.0
d1lm6a_202 Peptide deformylase {Streptococcus pneumoniae [Tax 100.0
d1lm4a_194 Peptide deformylase {Staphylococcus aureus [TaxId: 100.0
>d1y6ha_ d.167.1.1 (A:) Peptide deformylase {Leptospira interrogans [TaxId: 173]} 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: Leptospira interrogans [TaxId: 173]

Probab=100.00  E-value=3e-56  Score=383.09  Aligned_cols=163  Identities=37%  Similarity=0.619  Sum_probs=145.8

Q ss_pred             ccccccccCcccccccccccCCCCCCCHHHHHHHHHHHHHHHhCCceeEecccCCccceEEEEecCchhhccchhHHHhh
Q 024519           74 KLPEIVQAGDPVLHEPAREVDPGEIGSERIQNIIDDMVKVMRSAPGVGLAAPQIGVPLRIIVLEDTKEYISYQSKEEIKA  153 (266)
Q Consensus        74 ~~~~Iv~~gdPvLr~~a~~V~~~~i~~~el~~li~dM~~tM~~~~GvGLAAPQIGv~~rifVv~~~~~~~~~~~~e~~~~  153 (266)
                      ++++|+++|||+||++|++|+..++.++++++++++|++||++++|+||||||||+++|+|||+.....         ..
T Consensus         1 ai~~I~~~gdp~Lr~~a~~v~~~d~~~~~~~~li~dm~~tm~~~~GvGLAApQIGi~~ri~vi~~~~~~---------~~   71 (177)
T d1y6ha_           1 SVRKILRMGDPILRKISEPVTEDEIQTKEFKKLIRDMFDTMRHAEGVGLAAPQIGILKQIVVVGSEDNE---------RY   71 (177)
T ss_dssp             CCCCCCCTTCGGGGSCCBCCCGGGTTSHHHHHHHHHHHHHHHHTTCSEEEGGGGTCCBSEEEECCSSCT---------TS
T ss_pred             CcCchhcCCCHHHhccCccCCccccCCHHHHHHHHHHHHHHHhcCccccchhhheeeeeEEEeecCccc---------cc
Confidence            478999999999999999998666668999999999999999999999999999999999999764310         01


Q ss_pred             hcCCCCCeEEEEcCeeEecCCceecCcccCCccCCCceeeccccceEEEEECCCCCeEEEEEcchhhhHHhhhhhhcCce
Q 024519          154 FDRRPFDLLMILNPKLKKKSDRTALFFEGCLSVNGYRAVVERYLDIEVTGLDRDGQPIKVDATGWQARILQHECDHLDGT  233 (266)
Q Consensus       154 ~~~~~~~~~vlINP~I~~~s~~~~~~~EGCLSvPg~~~~V~R~~~I~V~y~D~~G~~~~~~~~G~~AR~~QHEiDHL~Gi  233 (266)
                      ......++.++|||+|+..|+++...+|||||+||+++.|+||.+|+|+|+|++|++++.+++||.|||||||||||+|+
T Consensus        72 ~~~~~~~~~v~iNP~I~~~s~~~~~~~EGCLS~Pg~~~~V~R~~~I~v~~~d~~G~~~~~~~~G~~Ar~iQHEiDHL~G~  151 (177)
T d1y6ha_          72 PGTPDVPERIILNPVITPLTKDTSGFWEGCLSVPGMRGYVERPNQIRMQWMDEKGNQFDETIDGYKAIVYQHECDHLQGI  151 (177)
T ss_dssp             TTSCCCCCEEEEEEEEEECCSCEEEEEEEETTEEEEEEEEEEESEEEEEEECTTCCEEEEEEEHHHHHHHHHHHHHHTTC
T ss_pred             ccccccceeeecceEEEEeccceEEeeccCcCcCCceeeeeeeeeeeeEecCCCCceeEEEechHHHHHHHHHHHHhCCE
Confidence            11123457899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeecCChhHHh
Q 024519          234 LYVDKMVPKTFR  245 (266)
Q Consensus       234 LfiDrl~~~~~~  245 (266)
                      ||+||+++..+.
T Consensus       152 l~~Dr~~~~k~~  163 (177)
T d1y6ha_         152 LYVDRLKDTKLF  163 (177)
T ss_dssp             CGGGGBSCTTSE
T ss_pred             ehhHhcChhhhH
Confidence            999999876543
>d1lmea_ d.167.1.1 (A:) Peptide deformylase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1xeoa1 d.167.1.1 (A:1-164) Peptide deformylase {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ix1a_ d.167.1.1 (A:) Peptide deformylase {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1lqya_ d.167.1.1 (A:) Peptide deformylase {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1rl4a_ d.167.1.1 (A:) Peptide deformylase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]} Back     information, alignment and structure
>d1v3ya_ d.167.1.1 (A:) Peptide deformylase {Thermus thermophilus [TaxId: 274]} 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