Citrus Sinensis ID: 024924

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
MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKIFMT
ccccHHHHHHHHHHHHHHcccEEEEEEEEccccccccccHHHHHHHccccEEEEEcccccEEEEEccccccEEEEcccccEEEEEEccccccccccccccccccccEEEEEEEEccccEEEEcccccccEEEEEccccccccccccccccccccccHHHHHHHHccccccHHHHHHccccEEccHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEccccccccccccccEEc
ccccccHHHHHccccHHccccEEEEEEEEcccEEEccccHHHHHHHHcccEEEEHHHHHEEEEEEcccccEEEEEEcccEEEEEEcccccccccccccccccccccccEEEEEEcccEEEEEccccHccHEHHcccccccHHHHccccccccccccHHHHHHHHHccccEHHHHHHcccccccccHHHHHHHHHHcccccccEHHHccHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHEEEccccccccccccEEEc
MPELPEVEAARRAIEEHCIGKKIVKSIIaddnkvidgvsasdfEASVLGKAILSAHRKGKnlwlrldsppfpsfqfgmtgAIYIKGVAVTQykrsavkdtdewpskYSKFFVELddglelsftdKRRFAKVrllndptsvppiselgpdallepmtvdeftDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQakihplqtavsLSKESCATLLKCIKEVIQSAVEvdadcsrfplewlfhfrwgkkpgkvngkifmt
MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSavkdtdewpskYSKFFVELDDGLELSFTDKRRFAKVrllndptsvppiselgpdallEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLewlfhfrwgkkpgkvngkifmt
MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKIFMT
************AIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLND*************ALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPG*********
MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAV*DTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKI***
********AARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKIFMT
**ELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKIFMT
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEWLFHFRWGKKPGKVNGKIFMT
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 ?
Query260 2.2.26 [Sep-21-2011]
O80358 390 Formamidopyrimidine-DNA g no no 0.980 0.653 0.810 1e-119
A4QFD9286 Formamidopyrimidine-DNA g yes no 0.938 0.853 0.326 1e-27
A9B0X2273 Formamidopyrimidine-DNA g yes no 0.826 0.787 0.342 1e-27
Q8NNV7286 Formamidopyrimidine-DNA g yes no 0.823 0.748 0.358 2e-27
Q03GC2275 Formamidopyrimidine-DNA g yes no 0.819 0.774 0.343 4e-27
Q8FP17285 Formamidopyrimidine-DNA g yes no 0.826 0.754 0.337 3e-26
A0LV85284 Formamidopyrimidine-DNA g yes no 0.834 0.764 0.316 2e-25
A8L594291 Formamidopyrimidine-DNA g yes no 0.85 0.759 0.303 2e-25
B0TER7277 Formamidopyrimidine-DNA g yes no 0.861 0.808 0.329 2e-25
A5UUN1273 Formamidopyrimidine-DNA g yes no 0.823 0.783 0.312 3e-25
>sp|O80358|FPG_ARATH Formamidopyrimidine-DNA glycosylase OS=Arabidopsis thaliana GN=FPG1 PE=1 SV=1 Back     alignment and function desciption
 Score =  426 bits (1095), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 209/258 (81%), Positives = 228/258 (88%), Gaps = 3/258 (1%)

Query: 1   MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
           MPELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGK
Sbjct: 1   MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGK 60

Query: 61  NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
           NLWL LDSPPFPSFQFGM GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLEL
Sbjct: 61  NLWLELDSPPFPSFQFGMAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLEL 120

Query: 121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
           SFTDKRRFAKVRLL +PTSV PISELGPDALLEPMTVDEF +SL+KKKITIK LLLDQ Y
Sbjct: 121 SFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEFAESLAKKKITIKPLLLDQGY 180

Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW 240
           ISGIGNW+ADEVLYQA+IHPLQTA SLSKE C  L   IKEVI+ AVEVDAD S+FP  W
Sbjct: 181 ISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSYW 240

Query: 241 LFHFRWGKKPGK--VNGK 256
           +FH R  KKPGK  V+GK
Sbjct: 241 IFHNRE-KKPGKAFVDGK 257
Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Can process efficiently 4,6-diamino-5-formamidopyrimidine (FapyA), 2,6-diamino-4- hydroxy-5-formamidopyrimidine (FapyG) and the further oxidation products of 8-oxoguanine (8-oxoG), such as guanidinohydantoin and spiroiminodihydantoin. Has marginal activity towards 8-oxoG. Has AP (apurinic/apyrimidinic) lyase activity. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates.
Arabidopsis thaliana (taxid: 3702)
EC: 4EC: .EC: 2EC: .EC: 9EC: 9EC: .EC: 1EC: 8
>sp|A4QFD9|FPG_CORGB Formamidopyrimidine-DNA glycosylase OS=Corynebacterium glutamicum (strain R) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|A9B0X2|FPG_HERA2 Formamidopyrimidine-DNA glycosylase OS=Herpetosiphon aurantiacus (strain ATCC 23779 / DSM 785) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|Q8NNV7|FPG_CORGL Formamidopyrimidine-DNA glycosylase OS=Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / LMG 3730 / NCIMB 10025) GN=mutM PE=3 SV=3 Back     alignment and function description
>sp|Q03GC2|FPG_PEDPA Formamidopyrimidine-DNA glycosylase OS=Pediococcus pentosaceus (strain ATCC 25745 / 183-1w) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|Q8FP17|FPG_COREF Formamidopyrimidine-DNA glycosylase OS=Corynebacterium efficiens (strain DSM 44549 / YS-314 / AJ 12310 / JCM 11189 / NBRC 100395) GN=mutM PE=3 SV=3 Back     alignment and function description
>sp|A0LV85|FPG_ACIC1 Formamidopyrimidine-DNA glycosylase OS=Acidothermus cellulolyticus (strain ATCC 43068 / 11B) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|A8L594|FPG_FRASN Formamidopyrimidine-DNA glycosylase OS=Frankia sp. (strain EAN1pec) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|B0TER7|FPG_HELMI Formamidopyrimidine-DNA glycosylase OS=Heliobacterium modesticaldum (strain ATCC 51547 / Ice1) GN=mutM PE=3 SV=1 Back     alignment and function description
>sp|A5UUN1|FPG_ROSS1 Formamidopyrimidine-DNA glycosylase OS=Roseiflexus sp. (strain RS-1) GN=mutM 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 ?
Query260
357455291 424 Formamidopyrimidine-DNA glycosylase [Med 0.976 0.599 0.830 1e-124
297743498305 unnamed protein product [Vitis vinifera] 0.957 0.816 0.843 1e-124
30695252274 formamidopyrimidine-DNA glycosylase [Ara 0.988 0.937 0.824 1e-122
225442888 403 PREDICTED: formamidopyrimidine-DNA glyco 0.980 0.632 0.802 1e-120
255553261 403 formamidopyrimidine-DNA glycosylase, put 0.980 0.632 0.798 1e-118
3820620 390 putative formamidopyrimidine-DNA glycosy 0.980 0.653 0.810 1e-117
18404050 390 formamidopyrimidine-DNA glycosylase [Ara 0.980 0.653 0.810 1e-117
400261073310 Chain A, Crystal Structure Of Arabidopsi 0.980 0.822 0.810 1e-116
357117165 402 PREDICTED: formamidopyrimidine-DNA glyco 0.984 0.636 0.75 1e-114
356547444 399 PREDICTED: formamidopyrimidine-DNA glyco 0.980 0.639 0.771 1e-114
>gi|357455291|ref|XP_003597926.1| Formamidopyrimidine-DNA glycosylase [Medicago truncatula] gi|355486974|gb|AES68177.1| Formamidopyrimidine-DNA glycosylase [Medicago truncatula] Back     alignment and taxonomy information
 Score =  451 bits (1161), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 211/254 (83%), Positives = 232/254 (91%)

Query: 1   MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
           MPELPEVEAARRA+EE+CIGKKI K I+ADDNKVIDGVS  +FEASV+GK I++A RKGK
Sbjct: 1   MPELPEVEAARRAVEENCIGKKITKCIVADDNKVIDGVSREEFEASVVGKKIVAARRKGK 60

Query: 61  NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
           N+WL+LDSPPFPSFQFGM GA+YIKGVAVT+YKRSAV D DEWPSKYSKFF++LDDGLEL
Sbjct: 61  NMWLQLDSPPFPSFQFGMAGAVYIKGVAVTKYKRSAVNDEDEWPSKYSKFFIQLDDGLEL 120

Query: 121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
           SFTDKRRFA+VRLL DPTSVPPISELGPDAL + MT+DEFT+ L KKK  IKALLLDQSY
Sbjct: 121 SFTDKRRFARVRLLKDPTSVPPISELGPDALFDFMTLDEFTERLHKKKTEIKALLLDQSY 180

Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW 240
           ISGIGNWVADEVLYQA+IHP Q A SLS ESC+TL KCIKEVIQ AVEVDADCSRFPLEW
Sbjct: 181 ISGIGNWVADEVLYQARIHPRQIASSLSGESCSTLYKCIKEVIQFAVEVDADCSRFPLEW 240

Query: 241 LFHFRWGKKPGKVN 254
           LFHFRWGKKPGK++
Sbjct: 241 LFHFRWGKKPGKIS 254

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297743498|emb|CBI36365.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|30695252|ref|NP_849798.1| formamidopyrimidine-DNA glycosylase [Arabidopsis thaliana] gi|5903054|gb|AAD55613.1|AC008016_23 Identical to gb|AB010690 mutM homologue-2 (formamidopyrimidine-DNA glycosylase 1) from Arabidopsis thaliana. EST gb|Z18192 comes from this gene [Arabidopsis thaliana] gi|3550983|dbj|BAA32703.1| AtMMH-2 [Arabidopsis thaliana] gi|3820622|gb|AAC97953.1| putative formamidopyrimidine-DNA glycosylase 2 [Arabidopsis thaliana] gi|332194694|gb|AEE32815.1| formamidopyrimidine-DNA glycosylase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|225442888|ref|XP_002263635.1| PREDICTED: formamidopyrimidine-DNA glycosylase-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|255553261|ref|XP_002517673.1| formamidopyrimidine-DNA glycosylase, putative [Ricinus communis] gi|223543305|gb|EEF44837.1| formamidopyrimidine-DNA glycosylase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|3820620|gb|AAC97952.1| putative formamidopyrimidine-DNA glycosylase 1 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|18404050|ref|NP_564608.1| formamidopyrimidine-DNA glycosylase [Arabidopsis thaliana] gi|5903053|gb|AAD55612.1|AC008016_22 Identical to gb|AB010690 mutM homologue-1 (formamidopyrimidine-DNA glycosylase 1) from Arabidopsis thaliana. EST gb|Z18192 comes from this gene [Arabidopsis thaliana] gi|3550982|dbj|BAA32702.1| AtMMH-1 [Arabidopsis thaliana] gi|195947437|gb|ACG58696.1| At1g52500 [Arabidopsis thaliana] gi|332194693|gb|AEE32814.1| formamidopyrimidine-DNA glycosylase [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|400261073|pdb|3TWL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg gi|400261074|pdb|3TWM|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg gi|400261075|pdb|3TWM|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fpg Back     alignment and taxonomy information
>gi|357117165|ref|XP_003560344.1| PREDICTED: formamidopyrimidine-DNA glycosylase-like [Brachypodium distachyon] Back     alignment and taxonomy information
>gi|356547444|ref|XP_003542122.1| PREDICTED: formamidopyrimidine-DNA glycosylase-like [Glycine max] 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 ?
Query260
TAIR|locus:2035195 390 MMH-1 "MUTM homolog-1" [Arabid 0.980 0.653 0.810 1.7e-107
ASPGD|ASPL0000009569363 AN3629 [Emericella nidulans (t 0.965 0.691 0.401 6.4e-44
TIGR_CMR|DET_1389270 DET_1389 "formamidopyrimidine- 0.807 0.777 0.343 4.2e-24
TIGR_CMR|GSU_0997271 GSU_0997 "formamidopyrimidine- 0.842 0.808 0.326 6.1e-23
UNIPROTKB|P05523269 mutM [Escherichia coli K-12 (t 0.480 0.464 0.32 3.5e-19
UNIPROTKB|P64150289 fpg1 "Formamidopyrimidine-DNA 0.811 0.730 0.311 4.6e-18
TIGR_CMR|BA_4830276 BA_4830 "formamidopyrimidine-D 0.819 0.771 0.281 1.6e-17
TIGR_CMR|SO_4726271 SO_4726 "formamidopyrimidine-D 0.807 0.774 0.282 5.3e-17
TIGR_CMR|APH_0411268 APH_0411 "formamidopyrimidine- 0.661 0.641 0.313 8.6e-17
TIGR_CMR|SPO_0146283 SPO_0146 "formamidopyrimidine- 0.846 0.777 0.268 2.6e-15
TAIR|locus:2035195 MMH-1 "MUTM homolog-1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1063 (379.3 bits), Expect = 1.7e-107, P = 1.7e-107
 Identities = 209/258 (81%), Positives = 228/258 (88%)

Query:     1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
             MPELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGK
Sbjct:     1 MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGK 60

Query:    61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
             NLWL LDSPPFPSFQFGM GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLEL
Sbjct:    61 NLWLELDSPPFPSFQFGMAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLEL 120

Query:   121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
             SFTDKRRFAKVRLL +PTSV PISELGPDALLEPMTVDEF +SL+KKKITIK LLLDQ Y
Sbjct:   121 SFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEFAESLAKKKITIKPLLLDQGY 180

Query:   181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW 240
             ISGIGNW+ADEVLYQA+IHPLQTA SLSKE C  L   IKEVI+ AVEVDAD S+FP  W
Sbjct:   181 ISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSYW 240

Query:   241 LFHFRWGKKPGK--VNGK 256
             +FH R  KKPGK  V+GK
Sbjct:   241 IFHNR-EKKPGKAFVDGK 257
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003684 "damaged DNA binding" evidence=IEA
GO:0003906 "DNA-(apurinic or apyrimidinic site) lyase activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA;IDA
GO:0006284 "base-excision repair" evidence=IEA
GO:0006289 "nucleotide-excision repair" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0008534 "oxidized purine nucleobase lesion DNA N-glycosylase activity" evidence=IEA
GO:0016799 "hydrolase activity, hydrolyzing N-glycosyl compounds" evidence=IEA
GO:0019104 "DNA N-glycosylase activity" evidence=ISS;IDA
GO:0000741 "karyogamy" evidence=RCA
GO:0006312 "mitotic recombination" evidence=RCA
GO:0009560 "embryo sac egg cell differentiation" evidence=RCA
GO:0006979 "response to oxidative stress" evidence=TAS
ASPGD|ASPL0000009569 AN3629 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
TIGR_CMR|DET_1389 DET_1389 "formamidopyrimidine-DNA glycosylase" [Dehalococcoides ethenogenes 195 (taxid:243164)] Back     alignment and assigned GO terms
TIGR_CMR|GSU_0997 GSU_0997 "formamidopyrimidine-DNA glycosylase" [Geobacter sulfurreducens PCA (taxid:243231)] Back     alignment and assigned GO terms
UNIPROTKB|P05523 mutM [Escherichia coli K-12 (taxid:83333)] Back     alignment and assigned GO terms
UNIPROTKB|P64150 fpg1 "Formamidopyrimidine-DNA glycosylase 1" [Mycobacterium tuberculosis (taxid:1773)] Back     alignment and assigned GO terms
TIGR_CMR|BA_4830 BA_4830 "formamidopyrimidine-DNA glycosylase" [Bacillus anthracis str. Ames (taxid:198094)] Back     alignment and assigned GO terms
TIGR_CMR|SO_4726 SO_4726 "formamidopyrimidine-DNA glycosylase" [Shewanella oneidensis MR-1 (taxid:211586)] Back     alignment and assigned GO terms
TIGR_CMR|APH_0411 APH_0411 "formamidopyrimidine-DNA glycosylase" [Anaplasma phagocytophilum HZ (taxid:212042)] Back     alignment and assigned GO terms
TIGR_CMR|SPO_0146 SPO_0146 "formamidopyrimidine-DNA glycosylase" [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) ?
B0TER7FPG_HELMI4, ., 2, ., 9, 9, ., 1, 80.32910.86150.8086yesno
Q24XW2FPG_DESHY4, ., 2, ., 9, 9, ., 1, 80.31220.84610.8058yesno
Q3ABL4FPG_CARHZ4, ., 2, ., 9, 9, ., 1, 80.31480.81530.8060yesno
A4QFD9FPG_CORGB4, ., 2, ., 9, 9, ., 1, 80.32610.93840.8531yesno
B8FU83FPG_DESHD4, ., 2, ., 9, 9, ., 1, 80.31220.84610.8058yesno
Q837G3FPG_ENTFA4, ., 2, ., 9, 9, ., 1, 80.30860.86920.8071yesno

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 Layer4.2.990.766
4th Layer4.2.99.180.824
3rd Layer3.2.20.766
3rd Layer3.2.2.230.824

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00000281001
SubName- Full=Chromosome chr9 scaffold_104, whole genome shotgun sequence; (410 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00021219001
RecName- Full=Uracil-DNA glycosylase; EC=3.2.2.-;; Excises uracil residues from the DNA which c [...] (328 aa)
•     • 0.672
GSVIVG00027960001
SubName- Full=Chromosome chr7 scaffold_42, whole genome shotgun sequence; (233 aa)
•     • 0.666
GSVIVG00013338001
SubName- Full=Chromosome undetermined scaffold_463, whole genome shotgun sequence; (476 aa)
•     • 0.579
GSVIVG00001931001
SubName- Full=Chromosome chr5 scaffold_124, whole genome shotgun sequence; (291 aa)
      • 0.517
GSVIVG00025329001
SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (263 aa)
      • 0.497
GSVIVG00032487001
SubName- Full=Chromosome chr4 scaffold_6, whole genome shotgun sequence; (436 aa)
•     • 0.403

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 ?
Query260
TIGR00577272 TIGR00577, fpg, formamidopyrimidine-DNA glycosylas 3e-92
cd08972137 cd08972, PF_Nei_N, N-terminal domain of the plant 2e-67
PRK01103274 PRK01103, PRK01103, formamidopyrimidine/5-formylur 2e-56
COG0266273 COG0266, Nei, Formamidopyrimidine-DNA glycosylase 2e-49
pfam01149117 pfam01149, Fapy_DNA_glyco, Formamidopyrimidine-DNA 2e-34
pfam0683193 pfam06831, H2TH, Formamidopyrimidine-DNA glycosyla 6e-34
PRK14810272 PRK14810, PRK14810, formamidopyrimidine-DNA glycos 1e-32
PRK14811269 PRK14811, PRK14811, formamidopyrimidine-DNA glycos 2e-32
PRK13945282 PRK13945, PRK13945, formamidopyrimidine-DNA glycos 1e-30
smart00898115 smart00898, Fapy_DNA_glyco, Formamidopyrimidine-DN 1e-29
cd08966120 cd08966, EcFpg-like_N, N-terminal domain of Escher 1e-27
cd08773117 cd08773, FpgNei_N, N-terminal domain of Fpg (forma 5e-24
cd08976117 cd08976, BaFpgNei_N_4, Uncharacterized bacterial s 3e-22
PRK10445263 PRK10445, PRK10445, endonuclease VIII; Provisional 1e-12
cd08973122 cd08973, BaFpgNei_N_1, Uncharacterized bacterial s 3e-08
>gnl|CDD|233031 TIGR00577, fpg, formamidopyrimidine-DNA glycosylase (fpg) Back     alignment and domain information 
 Score =  273 bits (699), Expect = 3e-92
 Identities = 93/257 (36%), Positives = 130/257 (50%), Gaps = 16/257 (6%)

Query: 2   PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
           PELPEVE  RR +E   +GK I    +   N V+      D +  +LG+ ILS  R+GK 
Sbjct: 1   PELPEVETVRRGLEPLVLGKTIKSVEVVLRNPVLRPAGPEDLQKRLLGQTILSIQRRGKY 60

Query: 62  LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
           L   LD            GA+        +Y+  AV D    P K+       DDG EL 
Sbjct: 61  LLFELDD-----------GALVSHLRMEGKYRLEAVPDA---PEKHDHVDFLFDDGTELR 106

Query: 122 FTDKRRFAKVRLLNDPT--SVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
           + D RRF    L +     +VP +++LGP+ L E  T +   + L+K K  IK  LLDQ 
Sbjct: 107 YHDPRRFGTWLLFDRGQVENVPLLAKLGPEPLSEDFTAEYLFEKLAKSKRKIKTALLDQR 166

Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLE 239
            ++GIGN  ADEVL++A IHP + A SLSKE C  L + IKEV++ A+E+     R    
Sbjct: 167 LVAGIGNIYADEVLFRAGIHPERLANSLSKEECELLHRAIKEVLRKAIEMGGTTIRDYSN 226

Query: 240 WLFHFRWGKKPGKVNGK 256
              H  + ++  +V G+
Sbjct: 227 SDGHNGYFQQELQVYGR 243

All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 272
>gnl|CDD|176806 cd08972, PF_Nei_N, N-terminal domain of the plant and fungal Nei and related proteins Back     alignment and domain information
>gnl|CDD|234899 PRK01103, PRK01103, formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated Back     alignment and domain information
>gnl|CDD|223344 COG0266, Nei, Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|216330 pfam01149, Fapy_DNA_glyco, Formamidopyrimidine-DNA glycosylase N-terminal domain Back     alignment and domain information
>gnl|CDD|115485 pfam06831, H2TH, Formamidopyrimidine-DNA glycosylase H2TH domain Back     alignment and domain information
>gnl|CDD|173271 PRK14810, PRK14810, formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>gnl|CDD|184831 PRK14811, PRK14811, formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>gnl|CDD|184410 PRK13945, PRK13945, formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>gnl|CDD|214895 smart00898, Fapy_DNA_glyco, Formamidopyrimidine-DNA glycosylase N-terminal domain Back     alignment and domain information
>gnl|CDD|176800 cd08966, EcFpg-like_N, N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases Back     alignment and domain information
>gnl|CDD|176798 cd08773, FpgNei_N, N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>gnl|CDD|176810 cd08976, BaFpgNei_N_4, Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>gnl|CDD|182467 PRK10445, PRK10445, endonuclease VIII; Provisional Back     alignment and domain information
>gnl|CDD|176807 cd08973, BaFpgNei_N_1, Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 260
COG0266273 Nei Formamidopyrimidine-DNA glycosylase [DNA repli 100.0
PRK13945282 formamidopyrimidine-DNA glycosylase; Provisional 100.0
PRK01103274 formamidopyrimidine/5-formyluracil/ 5-hydroxymethy 100.0
TIGR00577272 fpg formamidopyrimidine-DNA glycosylase (fpg). All 100.0
PRK14811269 formamidopyrimidine-DNA glycosylase; Provisional 100.0
PRK14810272 formamidopyrimidine-DNA glycosylase; Provisional 100.0
PRK10445263 endonuclease VIII; Provisional 100.0
cd08972137 PF_Nei_N N-terminal domain of the plant and fungal 100.0
PF0683192 H2TH: Formamidopyrimidine-DNA glycosylase H2TH dom 100.0
cd08976117 BaFpgNei_N_4 Uncharacterized bacterial subgroup of 100.0
PF01149116 Fapy_DNA_glyco: Formamidopyrimidine-DNA glycosylas 99.98
cd08966120 EcFpg-like_N N-terminal domain of Escherichia coli 99.98
cd08773117 FpgNei_N N-terminal domain of Fpg (formamidopyrimi 99.97
cd08973122 BaFpgNei_N_1 Uncharacterized bacterial subgroup of 99.97
cd08967131 MeNeil1_N N-terminal domain of metazoan Nei-like g 99.97
cd08975117 BaFpgNei_N_3 Uncharacterized bacterial subgroup of 99.95
cd08971114 AcNei2_N N-terminal domain of the actinomycetal Ne 99.95
cd0897498 BaFpgNei_N_2 Uncharacterized bacterial subgroup of 99.94
cd08965115 EcNei-like_N N-terminal domain of Escherichia coli 99.94
cd08970110 AcNei1_N N-terminal domain of the actinomycetal Ne 99.94
cd08968126 MeNeil2_N N-terminal domain of metazoan Nei-like g 99.9
cd08969140 MeNeil3_N N-terminal domain of metazoan Nei-like g 99.69
PF05833 455 FbpA: Fibronectin-binding protein A N-terminus (Fb 98.17
COG0099121 RpsM Ribosomal protein S13 [Translation, ribosomal 97.07
PF00416107 Ribosomal_S13: Ribosomal protein S13/S18; InterPro 96.99
PRK04184 535 DNA topoisomerase VI subunit B; Validated 96.99
COG1293 564 Predicted RNA-binding protein homologous to eukary 96.79
PRK05179122 rpsM 30S ribosomal protein S13; Validated 96.71
CHL00137122 rps13 ribosomal protein S13; Validated 96.49
TIGR01052 488 top6b DNA topoisomerase VI, B subunit. This model 96.49
PTZ00134154 40S ribosomal protein S18; Provisional 96.46
TIGR03631113 bact_S13 30S ribosomal protein S13. This model des 96.19
TIGR03629144 arch_S13P archaeal ribosomal protein S13P. This mo 96.01
PRK04053149 rps13p 30S ribosomal protein S13P; Reviewed 95.98
COG1389 538 DNA topoisomerase VI, subunit B [DNA replication, 93.84
KOG3311152 consensus Ribosomal protein S18 [Translation, ribo 91.79
TIGR00275400 flavoprotein, HI0933 family. The model when search 81.59
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=2.8e-73  Score=502.57  Aligned_cols=243  Identities=34%  Similarity=0.496  Sum_probs=227.0

Q ss_pred             CCChhHHHHHHHHHHhhcCCceEEEEEecCCCccccCCChhhHHHHhcCCeEEeEEEeeeEEEEecCCCCccEEeecceE
Q 024924            1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTG   80 (260)
Q Consensus         1 MPElPEVe~~~~~L~~~~~G~~I~~v~~~~~~~~~~~~~~~~~~~~L~G~~i~~v~r~GK~l~~~~~~~~~L~~HlgMtG   80 (260)
                      ||||||||++++.|++.++|++|.+|++. .+++.++.+ ++|...|.|++|.+|.||||||+++|+++.+|++||||+|
T Consensus         1 MPELPEVetv~rgL~~~~~G~~I~~v~~~-~p~l~~~~~-~~~~~~L~G~~I~~v~rRgKyLl~~l~g~~~Li~HLgM~G   78 (273)
T COG0266           1 MPELPEVETVRRGLEPHLVGKTITRVEVR-RPRLRWPDS-EEFAERLTGQRITSVERRGKYLLIELSGDLTLISHLGMSG   78 (273)
T ss_pred             CCCCcHHHHHHHhhHHHhCCCEEEEEEec-CCceeccCC-HHHHhhcCCcEEeeEecccceEEEEcCCCcEEEEecCcce
Confidence            99999999999999999999999999998 466666554 7899999999999999999999999977779999999999


Q ss_pred             EEEEeeccccccccccccCCCCCCCCceEEEEEEcCC-ceEEEecCCcceEEEEecCCC-CCCCccCCCCCCCCCCCCHH
Q 024924           81 AIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDG-LELSFTDKRRFAKVRLLNDPT-SVPPISELGPDALLEPMTVD  158 (260)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~p~k~~~l~l~l~~~-~~l~f~d~R~fg~~~l~~~~~-~~~~l~~lGpDpl~~~~~~~  158 (260)
                      +|++...             +.+..+|+|+.|+|+|| ..|.|+|+|+||.+++++..+ .++.+++||||||+++||++
T Consensus        79 ~~~~~~~-------------~~~~~kH~hv~~~~~~g~~~l~y~D~R~FG~~~~~~~~~~~~~~l~~LGpePl~~~f~~~  145 (273)
T COG0266          79 SLRLEAR-------------GEPDEKHDHVDFVLSDGKDVLRYNDPRRFGTMLLIEDLEEVHPVLAKLGPEPLSDDFDPE  145 (273)
T ss_pred             EEEEecC-------------CCCCCcceEEEEEEcCCceEEEEecCCcCcEEEEecccccccHHHHhcCCCCCccccCHH
Confidence            9999653             22356899999999999 599999999999999998665 77789999999999999999


Q ss_pred             HHHHHHcCCCcchhHHhhcCcccccchhHHHHHHHhhcCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCC-----
Q 024924          159 EFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADC-----  233 (260)
Q Consensus       159 ~~~~~l~~~~~~Ik~~LlDQ~~iaGiGNiya~EiLf~a~IhP~~~~~~Ls~~e~~~L~~~i~~vL~~ai~~gg~~-----  233 (260)
                      ++.+++++++++||.+||||++||||||||+||+||+|||||.+++++|+.+++..|+++|+.||..||+.|||+     
T Consensus       146 ~l~~~l~~~~~~IK~~LLDQ~vvaGvGNIYa~E~Lf~agI~P~~~a~~l~~~~~~~l~~~i~~vl~~ai~~gGtt~r~~~  225 (273)
T COG0266         146 YLAEKLAKKKRRIKTALLDQKVVAGVGNIYADEILFRAGIHPARPAGDLSLAQLALLHEAIKDVLADAIERGGTTLRDFV  225 (273)
T ss_pred             HHHHHHhcCccchHHHhhcCCceecccHHHHHHHHHHcCCCcccCccccCHHHHHHHHHHHHHHHHHHHHhCCCccccee
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999986     


Q ss_pred             ------CCCCcccEEeeeCCCCCCCcCCcccC
Q 024924          234 ------SRFPLEWLFHFRWGKKPGKVNGKIFM  259 (260)
Q Consensus       234 ------~~~~~~~lv~~R~~~~~~~~~~~~~~  259 (260)
                            |.|+..+.||+|.|+ ||.+||++|+
T Consensus       226 ~~~g~~G~fq~~l~VYgR~Ge-pC~~CGt~I~  256 (273)
T COG0266         226 NADGKPGYFQQELKVYGRAGE-PCRRCGTPIE  256 (273)
T ss_pred             ccCCCCCccceeEEEecCCCC-CCCccCCEeE
Confidence                  688999999999997 9999999996

>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated Back     alignment and domain information
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg) Back     alignment and domain information
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional Back     alignment and domain information
>PRK10445 endonuclease VIII; Provisional Back     alignment and domain information
>cd08972 PF_Nei_N N-terminal domain of the plant and fungal Nei and related proteins Back     alignment and domain information
>PF06831 H2TH: Formamidopyrimidine-DNA glycosylase H2TH domain; InterPro: IPR015886 This entry represents a helix-2turn-helix DNA-binding domain found in DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents Back     alignment and domain information
>cd08976 BaFpgNei_N_4 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>PF01149 Fapy_DNA_glyco: Formamidopyrimidine-DNA glycosylase N-terminal domain; InterPro: IPR012319 This entry represents the catalytic domain of DNA glycosylase/AP lyase enzymes, which are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents Back     alignment and domain information
>cd08966 EcFpg-like_N N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases Back     alignment and domain information
>cd08773 FpgNei_N N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>cd08973 BaFpgNei_N_1 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>cd08967 MeNeil1_N N-terminal domain of metazoan Nei-like glycosylase 1 (NEIL1) Back     alignment and domain information
>cd08975 BaFpgNei_N_3 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>cd08971 AcNei2_N N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases Back     alignment and domain information
>cd08974 BaFpgNei_N_2 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases Back     alignment and domain information
>cd08965 EcNei-like_N N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases Back     alignment and domain information
>cd08970 AcNei1_N N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases Back     alignment and domain information
>cd08968 MeNeil2_N N-terminal domain of metazoan Nei-like glycosylase 2 (NEIL2) Back     alignment and domain information
>cd08969 MeNeil3_N N-terminal domain of metazoan Nei-like glycosylase 3 (NEIL3) Back     alignment and domain information
>PF05833 FbpA: Fibronectin-binding protein A N-terminus (FbpA); InterPro: IPR008616 This family consists of the N-terminal region of the prokaryotic fibronectin-binding protein, the C-terminal region is IPR008532 from INTERPRO Back     alignment and domain information
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>PRK04184 DNA topoisomerase VI subunit B; Validated Back     alignment and domain information
>COG1293 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription] Back     alignment and domain information
>PRK05179 rpsM 30S ribosomal protein S13; Validated Back     alignment and domain information
>CHL00137 rps13 ribosomal protein S13; Validated Back     alignment and domain information
>TIGR01052 top6b DNA topoisomerase VI, B subunit Back     alignment and domain information
>PTZ00134 40S ribosomal protein S18; Provisional Back     alignment and domain information
>TIGR03631 bact_S13 30S ribosomal protein S13 Back     alignment and domain information
>TIGR03629 arch_S13P archaeal ribosomal protein S13P Back     alignment and domain information
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed Back     alignment and domain information
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair] Back     alignment and domain information
>KOG3311 consensus Ribosomal protein S18 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR00275 flavoprotein, HI0933 family 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 ?
Query260
3twl_A310 Crystal Structure Of Arabidopsis Thaliana Fpg Lengt 1e-119
3twk_A297 Crystal Structure Of Arabidopsis Thaliana Fpg Lengt 1e-116
1ee8_A266 Crystal Structure Of Mutm (Fpg) Protein From Thermu 1e-21
1k82_A268 Crystal Structure Of E.Coli Formamidopyrimidine-Dna 2e-20
1l1t_A274 Mutm (Fpg) Bound To Abasic-Site Containing Dna Leng 4e-19
1r2y_A274 Mutm (Fpg) Bound To 8-Oxoguanine (Oxog) Containing 1e-18
1tdz_A272 Crystal Structure Complex Between The Lactococcus L 2e-18
2f5n_A274 Mutm Crosslinked To Undamaged Dna Sampling A:t Base 4e-18
2f5q_A274 Catalytically Inactive (E3q) Mutm Crosslinked To Ox 1e-17
1pji_A271 Crystal Structure Of Wild Type Lactococcus Lactis F 1e-17
3gpx_A257 Sequence-Matched Mutm Interrogation Complex 4 (Ic4) 2e-17
3go8_A257 Mutm Encountering An Intrahelical 8-Oxoguanine (Oxo 2e-17
3sar_A273 Mutm Slanted Complex 1 Length = 273 2e-17
3gpu_A256 Mutm Encountering An Intrahelical 8-Oxoguanine (Oxo 2e-17
3gpp_A273 Mutm Encountering An Intrahelical 8-Oxoguanine (Oxo 2e-17
3gp1_A273 Mutm Encountering An Intrahelical 8-Oxoguanine (Oxo 3e-17
3gpy_A273 Sequence-Matched Mutm Lesion Recognition Complex 3 5e-17
3u6c_A273 Mutm Set 1 Apgo Length = 273 5e-17
3jr4_A273 Mutm Interrogating An Extrahelical G Length = 273 5e-17
4g4n_A273 Mutm Containing M77a Mutation Bound To Undamaged Dn 7e-17
1nnj_A271 Crystal Structure Complex Between The Lactococcus L 1e-16
4g4o_A273 Mutm Containing M77a Mutation Bound To Oxog-contain 1e-16
3sas_A273 Mutm Slanted Complex 4 With R112a Mutation Length = 2e-16
4g4q_A273 Mutm Containing F114a Mutation Bound To Undamaged D 2e-16
1kfv_A271 Crystal Structure Of Lactococcus Lactis Formamido-P 4e-16
4g4r_A273 Mutm Containing F114a Mutation Bound To Oxog-contai 6e-16
3a45_A289 Crystal Structure Of Mvnei1_2 Length = 289 6e-12
3a42_A295 Crystal Structure Of Mvnei1 Length = 295 6e-12
3vk7_A295 Crystal Structure Of Dna-glycosylase Bound To Dna C 1e-11
1tdh_A 364 Crystal Structure Of Human Endonuclease Viii-Like 1 1e-07
2oq4_A262 Crystal Structure Of The Dna Repair Enzyme Endonucl 2e-04
1q3c_A262 Crystal Structure Of The Dna Repair Enzyme Endonucl 2e-04
1k3w_A262 Crystal Structure Of A Trapped Reaction Intermediat 2e-04
1q3b_A262 Crystal Structure Of The Dna Repair Enzyme Endonucl 2e-04
>pdb|3TWL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg Length = 310 Back     alignment and structure 
Iteration: 1

 Score =  423 bits (1088), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 209/258 (81%), Positives = 228/258 (88%), Gaps = 3/258 (1%)
Query: 1   MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
           MPELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGK
Sbjct: 1   MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGK 60
Query: 61  NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
           NLWL LDSPPFPSFQFGM GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLEL
Sbjct: 61  NLWLELDSPPFPSFQFGMAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLEL 120
Query: 121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
           SFTDKRRFAKVRLL +PTSV PISELGPDALLEPMTVDEF +SL+KKKITIK LLLDQ Y
Sbjct: 121 SFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEFAESLAKKKITIKPLLLDQGY 180
Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW 240
           ISGIGNW+ADEVLYQA+IHPLQTA SLSKE C  L   IKEVI+ AVEVDAD S+FP  W
Sbjct: 181 ISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSNW 240
Query: 241 LFHFRWGKKPGK--VNGK 256
           +FH R  KKPGK  V+GK
Sbjct: 241 IFHNR-EKKPGKAFVDGK 257
>pdb|3TWK|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg Length = 297 Back     alignment and structure
>pdb|1EE8|A Chain A, Crystal Structure Of Mutm (Fpg) Protein From Thermus Thermophilus Hb8 Length = 266 Back     alignment and structure
>pdb|1K82|A Chain A, Crystal Structure Of E.Coli Formamidopyrimidine-Dna Glycosylase (Fpg) Covalently Trapped With Dna Length = 268 Back     alignment and structure
>pdb|1L1T|A Chain A, Mutm (Fpg) Bound To Abasic-Site Containing Dna Length = 274 Back     alignment and structure
>pdb|1R2Y|A Chain A, Mutm (Fpg) Bound To 8-Oxoguanine (Oxog) Containing Dna Length = 274 Back     alignment and structure
>pdb|1TDZ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis Fpg (Mutm) And A Fapy-Dg Containing Dna Length = 272 Back     alignment and structure
>pdb|2F5N|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling A:t Base Pair Ic1 Length = 274 Back     alignment and structure
>pdb|2F5Q|A Chain A, Catalytically Inactive (E3q) Mutm Crosslinked To Oxog:c Containing Dna Cc2 Length = 274 Back     alignment and structure
>pdb|1PJI|A Chain A, Crystal Structure Of Wild Type Lactococcus Lactis Fpg Complexed To A 1,3 Propanediol Containing Dna Length = 271 Back     alignment and structure
>pdb|3GPX|A Chain A, Sequence-Matched Mutm Interrogation Complex 4 (Ic4) Length = 257 Back     alignment and structure
>pdb|3GO8|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog) Lesion In Ec3- Loop Deletion Complex Length = 257 Back     alignment and structure
>pdb|3SAR|A Chain A, Mutm Slanted Complex 1 Length = 273 Back     alignment and structure
>pdb|3GPU|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog) Lesion In Ec4- Loop Deletion Complex Length = 256 Back     alignment and structure
>pdb|3GPP|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog) Lesion In Ec3- T224p Complex Length = 273 Back     alignment and structure
>pdb|3GP1|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog) Lesion In Ec3- V222p Complex Length = 273 Back     alignment and structure
>pdb|3GPY|A Chain A, Sequence-Matched Mutm Lesion Recognition Complex 3 (Lrc3) Length = 273 Back     alignment and structure
>pdb|3U6C|A Chain A, Mutm Set 1 Apgo Length = 273 Back     alignment and structure
>pdb|3JR4|A Chain A, Mutm Interrogating An Extrahelical G Length = 273 Back     alignment and structure
>pdb|4G4N|A Chain A, Mutm Containing M77a Mutation Bound To Undamaged Dna Length = 273 Back     alignment and structure
>pdb|1NNJ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis Fpg And An Abasic Site Containing Dna Length = 271 Back     alignment and structure
>pdb|4G4O|A Chain A, Mutm Containing M77a Mutation Bound To Oxog-containing Dna Length = 273 Back     alignment and structure
>pdb|3SAS|A Chain A, Mutm Slanted Complex 4 With R112a Mutation Length = 273 Back     alignment and structure
>pdb|4G4Q|A Chain A, Mutm Containing F114a Mutation Bound To Undamaged Dna Length = 273 Back     alignment and structure
>pdb|1KFV|A Chain A, Crystal Structure Of Lactococcus Lactis Formamido-Pyrimidine Dna Glycosylase (Alias Fpg Or Mutm) Non Covalently Bound To An Ap Site Containing Dna. Length = 271 Back     alignment and structure
>pdb|4G4R|A Chain A, Mutm Containing F114a Mutation Bound To Oxog-containing Dna Length = 273 Back     alignment and structure
>pdb|3A45|A Chain A, Crystal Structure Of Mvnei1_2 Length = 289 Back     alignment and structure
>pdb|3A42|A Chain A, Crystal Structure Of Mvnei1 Length = 295 Back     alignment and structure
>pdb|3VK7|A Chain A, Crystal Structure Of Dna-glycosylase Bound To Dna Containing 5- Hydroxyuracil Length = 295 Back     alignment and structure
>pdb|1TDH|A Chain A, Crystal Structure Of Human Endonuclease Viii-Like 1 (Neil1) Length = 364 Back     alignment and structure
>pdb|2OQ4|A Chain A, Crystal Structure Of The Dna Repair Enzyme Endonuclease- Viii (Nei) From E. Coli (E2q) In Complex With Ap-Site Containing Dna Substrate Length = 262 Back     alignment and structure
>pdb|1Q3C|A Chain A, Crystal Structure Of The Dna Repair Enzyme Endonuclease-Viii (Nei) From E. Coli: The E2a Mutant At 2.3 Resolution Length = 262 Back     alignment and structure
>pdb|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of The Dna Repair Enzyme Endonuclease Viii With Dna Length = 262 Back     alignment and structure
>pdb|1Q3B|A Chain A, Crystal Structure Of The Dna Repair Enzyme Endonuclease-Viii (Nei) From E. Coli: The R252a Mutant At 2.05 Resolution. Length = 262 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 ?
Query260
3twl_A310 Formamidopyrimidine-DNA glycosylase 1; helix two t 1e-106
3vk8_A295 Probable formamidopyrimidine-DNA glycosylase; DNA 2e-72
3u6p_A273 Formamidopyrimidine-DNA glycosylase; DNA glycosyla 1e-56
2xzf_A271 Formamidopyrimidine-DNA glycosylase; hydrolase-DNA 6e-54
1ee8_A266 MUTM (FPG) protein; beta sandwich, zinc finger, he 4e-52
1k82_A268 Formamidopyrimidine-DNA glycosylase; protein-DNA c 9e-51
1k3x_A262 Endonuclease VIII; hydrolase/DNA, hydrolase-DNA co 4e-45
1tdh_A364 NEI endonuclease VIII-like 1; helix two turns heli 6e-43
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-04
>3twl_A Formamidopyrimidine-DNA glycosylase 1; helix two turns helix, zinc-LESS finger, hydrolase, DNA DAMA repair, DNA-binding, glycosidase, lyase; 1.70A {Arabidopsis thaliana} PDB: 3twm_A* 3twk_A Length = 310 Back     alignment and structure
 Score =  308 bits (792), Expect = e-106
 Identities = 202/248 (81%), Positives = 220/248 (88%)

Query: 1   MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
           MPELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGK
Sbjct: 1   MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGK 60

Query: 61  NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
           NLWL LDSPPFPSFQFGM GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLEL
Sbjct: 61  NLWLELDSPPFPSFQFGMAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLEL 120

Query: 121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
           SFTDKRRFAKVRLL +PTSV PISELGPDALLEPMTVDEF +SL+KKKITIK LLLDQ Y
Sbjct: 121 SFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEFAESLAKKKITIKPLLLDQGY 180

Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW 240
           ISGIGNW+ADEVLYQA+IHPLQTA SLSKE C  L   IKEVI+ AVEVDAD S+FP  W
Sbjct: 181 ISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSNW 240

Query: 241 LFHFRWGK 248
           +FH R  K
Sbjct: 241 IFHNREKK 248
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A* Length = 295 Back     alignment and structure
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair, sequence context; HET: DNA 08Q; 1.60A {Geobacillus stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A* 3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A* 2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A* 3sar_A* 3sav_A* ... Length = 273 Back     alignment and structure
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A* Length = 271 Back     alignment and structure
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Length = 266 Back     alignment and structure
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Length = 268 Back     alignment and structure
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A* Length = 262 Back     alignment and structure
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Length = 364 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 ?
Query260
3twl_A310 Formamidopyrimidine-DNA glycosylase 1; helix two t 100.0
3u6p_A273 Formamidopyrimidine-DNA glycosylase; DNA glycosyla 100.0
1k82_A268 Formamidopyrimidine-DNA glycosylase; protein-DNA c 100.0
2xzf_A271 Formamidopyrimidine-DNA glycosylase; hydrolase-DNA 100.0
1ee8_A266 MUTM (FPG) protein; beta sandwich, zinc finger, he 100.0
1k3x_A262 Endonuclease VIII; hydrolase/DNA, hydrolase-DNA co 100.0
3vk8_A295 Probable formamidopyrimidine-DNA glycosylase; DNA 100.0
1tdh_A364 NEI endonuclease VIII-like 1; helix two turns heli 100.0
3w0f_A287 Endonuclease 8-like 3; helix two turns helix, zinc 100.0
3r8n_M114 30S ribosomal protein S13; protein biosynthesis, R 97.48
2vqe_M126 30S ribosomal protein S13, 30S ribosomal protein S 97.19
3doa_A288 Fibrinogen binding protein; structural genomics, M 97.09
3iz6_M152 40S ribosomal protein S18 (S13P); eukaryotic ribos 97.07
2xzm_M155 RPS18E; ribosome, translation; 3.93A {Tetrahymena 97.05
3u5c_S146 40S ribosomal protein S18-A, 40S ribosomal protein 97.0
3j20_O148 30S ribosomal protein S13P; archaea, archaeal, KIN 96.95
3bbn_M145 Ribosomal protein S13; small ribosomal subunit, sp 93.1
1mu5_A 471 Type II DNA topoisomerase VI subunit B; GHKL ATPas 93.02
1qyr_A252 KSGA, high level kasugamycin resistance protein, S 84.67
2zbk_B 530 Type 2 DNA topoisomerase 6 subunit B; DNA binding 84.13
3fut_A271 Dimethyladenosine transferase; methyltransferase, 83.1
3gru_A295 Dimethyladenosine transferase; rossman fold, ribos 81.87
>3twl_A Formamidopyrimidine-DNA glycosylase 1; helix two turns helix, zinc-LESS finger, hydrolase, DNA DAMA repair, DNA-binding, glycosidase, lyase; 1.70A {Arabidopsis thaliana} PDB: 3twm_A* 3twk_A Back     alignment and structure
Probab=100.00  E-value=3.9e-76  Score=534.87  Aligned_cols=258  Identities=81%  Similarity=1.250  Sum_probs=229.3

Q ss_pred             CCChhHHHHHHHHHHhhcCCceEEEEEecCCCccccCCChhhHHHHhcCCeEEeEEEeeeEEEEecCCCCccEEeecceE
Q 024924            1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNLWLRLDSPPFPSFQFGMTG   80 (260)
Q Consensus         1 MPElPEVe~~~~~L~~~~~G~~I~~v~~~~~~~~~~~~~~~~~~~~L~G~~i~~v~r~GK~l~~~~~~~~~L~~HlgMtG   80 (260)
                      ||||||||++++.|++.+.|++|++|++..++.+++++.+++|.+.|.|++|++|.|+||||+++|+++.+|++||||+|
T Consensus         1 MPELPEVetvrr~L~~~l~G~~I~~v~v~~~~~~~~~~~~~~f~~~L~G~~I~~v~RrGKyL~~~l~~~~~L~~HLgMsG   80 (310)
T 3twl_A            1 MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGKNLWLELDSPPFPSFQFGMAG   80 (310)
T ss_dssp             -CCHHHHHHHHHHHHHHSTTCBEEEEEECCCTTTBCSSCHHHHHHHHTTCBEEEEEEETTEEEEEESSSCEEEEECTTTC
T ss_pred             CCcHHHHHHHHHHHHHHcCCCEEEEEEEcCCcceeccCChHHHHHHcCCCEEEEEEeeeeEEEEEeCCCCEEEEEcCCce
Confidence            99999999999999999999999999998555666656789999999999999999999999999998779999999999


Q ss_pred             EEEEeeccccccccccccCCCCCCCCceEEEEEEcCCceEEEecCCcceEEEEecCCCCCCCccCCCCCCCCCCCCHHHH
Q 024924           81 AIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEF  160 (260)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~p~k~~~l~l~l~~~~~l~f~d~R~fg~~~l~~~~~~~~~l~~lGpDpl~~~~~~~~~  160 (260)
                      +|++.+.+.+.|.+....+.+.||++|.+++|.|+||..|.|+|+|+||.++++++.+..+.+.+||||||+++||.++|
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~kh~~v~l~l~~g~~L~f~D~RrfG~~~l~~~~~~~~~l~~LGPDpL~~~f~~~~~  160 (310)
T 3twl_A           81 AIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLELSFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEF  160 (310)
T ss_dssp             EEEEC-----------------CCCTTEEEEEEETTSCEEEEECSSSCCEEEEESCGGGSTTGGGCCCBTTTSCCCHHHH
T ss_pred             EEEEecCCcccccccccccccCCCCceeEEEEEECCCCEEEEEecCcCcEEEEecchhhCchhhhcCCCCCCCcCCHHHH
Confidence            99997654444443332233457789999999999999999999999999999987667788999999999999999999


Q ss_pred             HHHHcCCCcchhHHhhcCcccccchhHHHHHHHhhcCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCCCCCCccc
Q 024924          161 TDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSAVEVDADCSRFPLEW  240 (260)
Q Consensus       161 ~~~l~~~~~~Ik~~LlDQ~~iaGiGNiya~EiLf~a~IhP~~~~~~Ls~~e~~~L~~~i~~vL~~ai~~gg~~~~~~~~~  240 (260)
                      .+++++++++||.+||||++||||||||+|||||+|||||.+++++||++|+.+|+++|++||++||+.||+++.|+..|
T Consensus       161 ~~~l~~~~~~IK~~LLDQ~vvaGIGNiYadEiLf~AgIhP~~~a~~Ls~~e~~~L~~~i~~vL~~ai~~gg~~g~f~~~~  240 (310)
T 3twl_A          161 AESLAKKKITIKPLLLDQGYISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSNW  240 (310)
T ss_dssp             HHHHHTCCSBHHHHHHCTTTSBSCCHHHHHHHHHHTTCCTTSBGGGCCHHHHHHHHHHHHHHHHHHHHTTTCGGGSCTTC
T ss_pred             HHHHhCCcchHHHHHhcCccccCCcHHHHHHHHHHcCCCcCCCcccCCHHHHHHHHHHHHHHHHHHHHcCCCCCCCcccE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeeeCCCCCCC--cCCcccC
Q 024924          241 LFHFRWGKKPGK--VNGKIFM  259 (260)
Q Consensus       241 lv~~R~~~~~~~--~~~~~~~  259 (260)
                      +||+|+|+ ||.  +||++|.
T Consensus       241 ~vygR~g~-pC~~~~CG~~I~  260 (310)
T 3twl_A          241 IFHNREKK-PGKAFVDGKKID  260 (310)
T ss_dssp             GGGGTTSC-TTSCEETTEECE
T ss_pred             EEeCcCCC-CCCCCCCCCeEE
Confidence            99999998 999  9999985
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair, sequence context; HET: DNA 08Q; 1.60A {Geobacillus stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A* 3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A* 2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A* 3sar_A* 3sav_A* ... Back     alignment and structure
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A* Back     alignment and structure
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A* Back     alignment and structure
>3vk8_A Probable formamidopyrimidine-DNA glycosylase; DNA glycosylase, hneil1 ortholog, DNA lesion, thymine glycol zincless finger; HET: DNA CTG; 2.00A {Acanthamoeba polyphaga mimivirus} PDB: 3vk7_A* 3a42_A 3a46_A* 3a45_A* Back     alignment and structure
>1tdh_A NEI endonuclease VIII-like 1; helix two turns helix, zinc-LESS finger, hydrolase; 2.10A {Homo sapiens} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 Back     alignment and structure
>3w0f_A Endonuclease 8-like 3; helix two turns helix, zinc finger, DNA binding, hydrolase; 2.00A {Mus musculus} Back     alignment and structure
>2vqe_M 30S ribosomal protein S13, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: a.156.1.1 PDB: 1gix_P* 1hnw_M* 1hnx_M* 1hnz_M* 1hr0_M 1ibk_M* 1ibl_M* 1ibm_M 1j5e_M 1jgo_P* 1jgp_P* 1jgq_P* 1mj1_P* 1ml5_P* 1n32_M* 1n33_M* 1n34_M 1n36_M 1xmo_M* 1xmq_M* ... Back     alignment and structure
>3doa_A Fibrinogen binding protein; structural genomics, MCSG., protein structure initiative, midwest center for structural genomics; 2.81A {Staphylococcus aureus subsp} Back     alignment and structure
>3iz6_M 40S ribosomal protein S18 (S13P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>2xzm_M RPS18E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_M Back     alignment and structure
>3u5c_S 40S ribosomal protein S18-A, 40S ribosomal protein S17-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_M 3o30_L 3o2z_L 3u5g_S 1s1h_M 3jyv_M* 2zkq_m Back     alignment and structure
>3j20_O 30S ribosomal protein S13P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3bbn_M Ribosomal protein S13; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A* Back     alignment and structure
>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A Back     alignment and structure
>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Back     alignment and structure
>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A* Back     alignment and structure
>3gru_A Dimethyladenosine transferase; rossman fold, ribosomal assem adenosyl-L-methionine, rRNA, methyltransferase, RNA-binding processing; HET: AMP; 1.60A {Methanocaldococcus jannaschii} PDB: 3grr_A* 3grv_A* 3gry_A* 3fyd_A 3fyc_A* 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 260
d1tdha2130 b.113.1.1 (A:2-131) Endonuclease VIII-like 1 (NEIL 2e-21
d1r2za2133 b.113.1.1 (A:2-134) DNA repair protein MutM (Fpg) 1e-20
d1k82a2128 b.113.1.1 (A:1-128) DNA repair protein MutM (Fpg) 3e-20
d1k3xa189 a.156.1.2 (A:125-213) Endonuclease VIII {Escherich 3e-20
d1tdza188 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg 1e-19
d1ee8a189 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg 2e-19
d1tdha1115 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NE 6e-19
d1k82a188 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg 2e-18
d1r2za194 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg 2e-17
d1ee8a2121 b.113.1.1 (A:1-121) DNA repair protein MutM (Fpg) 1e-15
d1tdza2130 b.113.1.1 (A:2-131) DNA repair protein MutM (Fpg) 1e-15
d2hkja178 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit m 7e-13
d1k3xa2124 b.113.1.1 (A:1-124) Endonuclease VIII {Escherichia 2e-11
>d1tdha2 b.113.1.1 (A:2-131) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} Length = 130 Back     information, alignment and structure

class: All beta proteins
fold: N-terminal domain of MutM-like DNA repair proteins
superfamily: N-terminal domain of MutM-like DNA repair proteins
family: N-terminal domain of MutM-like DNA repair proteins
domain: Endonuclease VIII-like 1 (NEIL1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 85.1 bits (210), Expect = 2e-21
 Identities = 30/147 (20%), Positives = 44/147 (29%), Gaps = 32/147 (21%)

Query: 2   PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
           PE PE+  A + + E C        +          V              +SA  +GK 
Sbjct: 1   PEGPELHLASQFVNEACRALVFGGCVEKSSVSRNPEVPFE------SSAYRISASARGKE 54

Query: 62  LWLRLDSPPFPS---------FQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFV 112
           L L L   P            F+FGM+G+  +                 E   +++    
Sbjct: 55  LRLILSPLPGAQPQQEPLALVFRFGMSGSFQLV--------------PREELPRHAHLRF 100

Query: 113 ELDDG---LELSFTDKRRFAKVRLLND 136
                   L L F D RRF +  L   
Sbjct: 101 YTAPPGPRLALCFVDIRRFGRWDLGGK 127
>d1r2za2 b.113.1.1 (A:2-134) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Length = 133 Back     information, alignment and structure
>d1k82a2 b.113.1.1 (A:1-128) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Length = 128 Back     information, alignment and structure
>d1k3xa1 a.156.1.2 (A:125-213) Endonuclease VIII {Escherichia coli [TaxId: 562]} Length = 89 Back     information, alignment and structure
>d1tdza1 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Length = 88 Back     information, alignment and structure
>d1ee8a1 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Length = 89 Back     information, alignment and structure
>d1tdha1 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} Length = 115 Back     information, alignment and structure
>d1k82a1 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Length = 88 Back     information, alignment and structure
>d1r2za1 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Length = 94 Back     information, alignment and structure
>d1ee8a2 b.113.1.1 (A:1-121) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Length = 121 Back     information, alignment and structure
>d1tdza2 b.113.1.1 (A:2-131) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Length = 130 Back     information, alignment and structure
>d2hkja1 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit middle domain {Archaeon Sulfolobus shibatae [TaxId: 2286]} Length = 78 Back     information, alignment and structure
>d1k3xa2 b.113.1.1 (A:1-124) Endonuclease VIII {Escherichia coli [TaxId: 562]} Length = 124 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 ?
Query260
d1tdza188 DNA repair protein MutM (Fpg) {Lactococcus lactis 100.0
d1k82a188 DNA repair protein MutM (Fpg) {Escherichia coli [T 100.0
d1ee8a189 DNA repair protein MutM (Fpg) {Thermus thermophilu 100.0
d1k82a2128 DNA repair protein MutM (Fpg) {Escherichia coli [T 100.0
d1r2za2133 DNA repair protein MutM (Fpg) {Bacillus stearother 100.0
d1r2za194 DNA repair protein MutM (Fpg) {Bacillus stearother 100.0
d1k3xa189 Endonuclease VIII {Escherichia coli [TaxId: 562]} 99.97
d1ee8a2121 DNA repair protein MutM (Fpg) {Thermus thermophilu 99.97
d1tdza2130 DNA repair protein MutM (Fpg) {Lactococcus lactis 99.97
d1k3xa2124 Endonuclease VIII {Escherichia coli [TaxId: 562]} 99.93
d1tdha2130 Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapi 99.93
d1tdha1115 Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapi 99.88
d2hkja178 Topoisomerase VI-B subunit middle domain {Archaeon 99.85
d1r2za346 DNA repair protein MutM (Fpg) {Bacillus stearother 97.14
d1tdza347 DNA repair protein MutM (Fpg) {Lactococcus lactis 97.05
d2gy9m1114 Ribosomal protein S13 {Escherichia coli [TaxId: 56 96.98
d1k82a344 DNA repair protein MutM (Fpg) {Escherichia coli [T 96.89
d2uubm1125 Ribosomal protein S13 {Thermus thermophilus [TaxId 96.77
d1ee8a356 DNA repair protein MutM (Fpg) {Thermus thermophilu 96.69
d1k3xa340 Endonuclease VIII {Escherichia coli [TaxId: 562]} 95.45
d1qyra_252 High level kasugamycin resistance protein KsgA {Es 88.03
d2i0za2169 Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396] 87.88
>d1tdza1 a.156.1.2 (A:132-219) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Back     information, alignment and structure
class: All alpha proteins
fold: S13-like H2TH domain
superfamily: S13-like H2TH domain
family: Middle domain of MutM-like DNA repair proteins
domain: DNA repair protein MutM (Fpg)
species: Lactococcus lactis [TaxId: 1358]

Probab=100.00  E-value=6.5e-35  Score=216.47  Aligned_cols=87  Identities=34%  Similarity=0.546  Sum_probs=85.9

Q ss_pred             CCCCCCCCCCHHHHHHHHcCCCcchhHHhhcCcccccchhHHHHHHHhhcCCCcccccCCCCHHHHHHHHHHHHHHHHHH
Q 024924          147 GPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIQSA  226 (260)
Q Consensus       147 GpDpl~~~~~~~~~~~~l~~~~~~Ik~~LlDQ~~iaGiGNiya~EiLf~a~IhP~~~~~~Ls~~e~~~L~~~i~~vL~~a  226 (260)
                      |||||+++||.++|.+++++++++||.+||||++||||||||+|||||+|||||++++++||++|+.+|++++++||+.|
T Consensus         1 GPDpL~~~f~~~~~~~~l~~~~~~ik~~LldQ~~iaGIGNiy~~EiLf~a~I~P~~~~~~Ls~~~~~~L~~~i~~vl~~a   80 (88)
T d1tdza1           1 GPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQTLVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSIIEILQKA   80 (88)
T ss_dssp             CCCSSTTTCCHHHHHHHHHHCCSBHHHHHHTSSSSSCCCHHHHHHHHHHTTCCTTCBGGGCCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCCccCHHHHHHHHHcccccHHHHHHhccccCCcChHHHHHHHHHHHcCccchhhHcCHHHHHHHHHHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCC
Q 024924          227 VEVDADC  233 (260)
Q Consensus       227 i~~gg~~  233 (260)
                      |+.||||
T Consensus        81 i~~gGtt   87 (88)
T d1tdza1          81 IKLGGSS   87 (88)
T ss_dssp             HHTTCCC
T ss_pred             HHcCCCC
Confidence            9999987
>d1k82a1 a.156.1.2 (A:129-216) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ee8a1 a.156.1.2 (A:122-210) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k82a2 b.113.1.1 (A:1-128) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1r2za2 b.113.1.1 (A:2-134) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1r2za1 a.156.1.2 (A:135-228) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1k3xa1 a.156.1.2 (A:125-213) Endonuclease VIII {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1ee8a2 b.113.1.1 (A:1-121) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1tdza2 b.113.1.1 (A:2-131) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Back     information, alignment and structure
>d1k3xa2 b.113.1.1 (A:1-124) Endonuclease VIII {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1tdha2 b.113.1.1 (A:2-131) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1tdha1 a.156.1.2 (A:132-246) Endonuclease VIII-like 1 (NEIL1) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hkja1 a.156.1.3 (A:229-306) Topoisomerase VI-B subunit middle domain {Archaeon Sulfolobus shibatae [TaxId: 2286]} Back     information, alignment and structure
>d1r2za3 g.39.1.8 (A:229-274) DNA repair protein MutM (Fpg) {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
>d1tdza3 g.39.1.8 (A:225-271) DNA repair protein MutM (Fpg) {Lactococcus lactis [TaxId: 1358]} Back     information, alignment and structure
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1k82a3 g.39.1.8 (A:225-268) DNA repair protein MutM (Fpg) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1ee8a3 g.39.1.8 (A:211-266) DNA repair protein MutM (Fpg) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1k3xa3 g.39.1.8 (A:223-262) Endonuclease VIII {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2i0za2 e.74.1.1 (A:193-361) Flavoprotein BC4706 {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure