Citrus Sinensis ID: 028336

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210
Protein Sequence
MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSSMNKKKSSKFSVDASLNVSGKGISGESEEYDSDEEFDELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV
Secondary Structure (PSIPRED)
cccEEEcccEEEEEccccccccccccccccEEccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccHHHHHHHHHHccEEEEEEcccEEEccccEEEccEEEEEcccccccccccccccHHHHHHHHHcccEEEEccccccccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEccccEEEEEccccEEEEEccccccEEEcccccEEHEHcccccccccccccccHHHHHHccccHHHHHcHcccccccccccccccccccHHccccEEEEEccccccccccHHHHHHHHHHcccHEHHccccEEEcccccEcccEEEEEcHEEcccccccccccccHHHHHHccccEEEEcccccccEEEEEEEccccccccccccc
Coil and Loop (DISEMBL)
maqitsqgglnllfngdgssfgveprdpfqyklgsglrsievhkrklirprngvwssmnkkksskfSVDASlnvsgkgisgeseeydsdeefDELACFRGLVldisyrpvnvVCWKRAICLEFMEKADVLEYYdqtinspngsfyiPAVLRVRHLLQVVKRRRIKnnlsrknlmyrdnftcqycssrenltidhvvpasrggewkwenlv
Flexible Loop (DISEMBL)
maqitsqgglnLLFNGDGSSFGVEPRDPFQYKLgsglrsievhkrklirprngvwssmnkkksskfsvdaslnvsgkgisgeseeydsDEEFDELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLqvvkrrriknnlsrknlmyrdNFTCQYcssrenltidhvvpasrggewkwenlv
Low Complexity Region (SEG)
MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWssmnkkksskfsVDASLNVSGKGIsgeseeydsdeefdeLACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV
Disordered region (IsUnstruct)
***********LLFN*************FQYKLGSGLRSIEVHKRKLI**********************************************LACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKW****
Disordered Region (DISOPRED)
********GLNLLFNGDGSSFGVEPRDPFQYKLGSGL************************************************************FRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGE*KWENLV
Disordered Region (DISEMBL)
MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSS************ASLNVSG***************FDELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV
Disordered Region (DISPRO)
*AQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSS*NKKKSS***********************SDEEFDELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASR**********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSSMNKKKSSKFSVDASLNVSGKGISGESEEYDSDEEFDELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	210
255568954	275	endonuclease, putative [Ricinus communis	0.957	0.730	0.657	2e-72
449446780	277	PREDICTED: uncharacterized protein LOC10	0.980	0.743	0.634	1e-70
225441641	277	PREDICTED: uncharacterized protein LOC10	0.971	0.736	0.654	1e-70
449489536	250	PREDICTED: uncharacterized protein LOC10	0.980	0.824	0.634	2e-70
224123804	272	predicted protein [Populus trichocarpa]	0.942	0.727	0.657	2e-68
388521737	270	unknown [Lotus japonicus]	0.980	0.762	0.584	3e-65
356571688	288	PREDICTED: uncharacterized protein LOC10	0.976	0.711	0.576	7e-62
297853378	283	HNH endonuclease domain-containing prote	0.990	0.734	0.576	4e-61
356560967	282	PREDICTED: uncharacterized protein LOC10	0.980	0.730	0.590	2e-60
30682222	284	HNH endonuclease [Arabidopsis thaliana]	0.990	0.732	0.573	9e-60

>gi|255568954|ref|XP_002525447.1| endonuclease, putative [Ricinus communis] gi|223535260|gb|EEF36937.1| endonuclease, putative [Ricinus communis]

 Score =  277 bits (709), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 142/216 (65%), Positives = 163/216 (75%), Gaps = 15/216 (6%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGL----RSIEVHKRKL--IRPRNGV 54
           MAQ T+QG L LLFN DG    +         LG+G      S  V K K   I     +
Sbjct: 1   MAQFTAQGRLKLLFNSDGIQCKL---------LGNGFVGGCTSFRVQKGKFRYIGSSTRL 51

Query: 55  WSSMNKKKSSKFSVDASLNVSGKGISGESEEYDSDEEFDELACFRGLVLDISYRPVNVVC 114
            +S   KKS  F+ +ASLN   +   GESE+YDS+ E D+LACFRGLVLDISYRPVNVVC
Sbjct: 52  HASSVSKKSRHFNAEASLNAEEENDIGESEDYDSEYETDDLACFRGLVLDISYRPVNVVC 111

Query: 115 WKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLM 174
           WKRAICLEFMEKADVLEYYDQT+NSP+GSFYIPAVLRV HLLQVVKRRRIK+NLSRKN++
Sbjct: 112 WKRAICLEFMEKADVLEYYDQTVNSPSGSFYIPAVLRVPHLLQVVKRRRIKSNLSRKNVL 171

Query: 175 YRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           +RDN+TCQYCSSRENLTIDHV+P +RGG+W WENLV
Sbjct: 172 HRDNYTCQYCSSRENLTIDHVLPTARGGQWTWENLV 207

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446780|ref|XP_004141149.1| PREDICTED: uncharacterized protein LOC101207660 [Cucumis sativus]

 Score =  271 bits (693), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 137/216 (63%), Positives = 165/216 (76%), Gaps = 10/216 (4%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSSMNK 60
           MAQ T+   L LL NGDG  FG E +D F+YKL    RS+   +  L RP +   SS + 
Sbjct: 1   MAQFTAHTRLKLLLNGDGLPFGSESKDRFRYKL----RSVRPRRFPLSRPSSSTTSSTSA 56

Query: 61  -KKSSKFSVDASLNVSGKGISGESEE-----YDSDEEFDELACFRGLVLDISYRPVNVVC 114
            +K ++ + +  + V  + ++G  ++     YD + E D+LACFRGLVLDISYRPVNVVC
Sbjct: 57  LRKPTQHAAEVRVGVRDESVNGGDDDVVGFDYDYELESDDLACFRGLVLDISYRPVNVVC 116

Query: 115 WKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLM 174
           WKRAICLEFMEKADVLEYYDQT+NSP+GSFYIPAVLRV HLLQVVKRRRIKN+LSRKN++
Sbjct: 117 WKRAICLEFMEKADVLEYYDQTVNSPSGSFYIPAVLRVPHLLQVVKRRRIKNSLSRKNIL 176

Query: 175 YRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           YRDN+TCQYCSS E+LTIDHV+P SRGGEW WENLV
Sbjct: 177 YRDNYTCQYCSSHESLTIDHVLPISRGGEWTWENLV 212

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225441641|ref|XP_002282210.1| PREDICTED: uncharacterized protein LOC100264031 [Vitis vinifera]

 Score =  271 bits (692), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 140/214 (65%), Positives = 157/214 (73%), Gaps = 10/214 (4%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQ-YKLGSGL-RSIEVHKRKL-IRPRNGVWSS 57
           MAQ T+QG       G     GVEP+DP+  YK G G      +H  KL       ++SS
Sbjct: 2   MAQFTAQG------QGRLKPLGVEPKDPYHCYKFGGGCWPRFRIHSPKLGFLDSTKLYSS 55

Query: 58  MNKKKSSKFSVDASLNVSGKGI-SGESEEYDSDEEFDELACFRGLVLDISYRPVNVVCWK 116
               KS+ F   A LNV  KGI   +    D + E DELACFRGLVLD+SYRPVNVVCW+
Sbjct: 56  SLNTKSNHFRAQARLNVGDKGIYDDDVHAGDGEFEMDELACFRGLVLDLSYRPVNVVCWR 115

Query: 117 RAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYR 176
           RAICLEFMEKADVLEYYDQT+NSP+GSFYIPAVLRV HLLQVVKRRRIKNNLSRKN+ YR
Sbjct: 116 RAICLEFMEKADVLEYYDQTVNSPSGSFYIPAVLRVPHLLQVVKRRRIKNNLSRKNIFYR 175

Query: 177 DNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           DNFTCQYCSS ENLT+DHV+P +RGGEWKWENLV
Sbjct: 176 DNFTCQYCSSGENLTVDHVLPIARGGEWKWENLV 209

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449489536|ref|XP_004158341.1| PREDICTED: uncharacterized protein LOC101226520 [Cucumis sativus]

 Score =  270 bits (691), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 137/216 (63%), Positives = 165/216 (76%), Gaps = 10/216 (4%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSSMNK 60
           MAQ T+   L LL NGDG  FG E +D F+YKL    RS+   +  L RP +   SS + 
Sbjct: 1   MAQFTAHTRLKLLLNGDGLPFGSESKDRFRYKL----RSVRPRRFPLSRPSSSTTSSTSA 56

Query: 61  -KKSSKFSVDASLNVSGKGISGESEE-----YDSDEEFDELACFRGLVLDISYRPVNVVC 114
            +K ++ + +  + V  + ++G  ++     YD + E D+LACFRGLVLDISYRPVNVVC
Sbjct: 57  LRKPTQHAAEVRVGVRDESVNGGDDDVVGFDYDYELESDDLACFRGLVLDISYRPVNVVC 116

Query: 115 WKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLM 174
           WKRAICLEFMEKADVLEYYDQT+NSP+GSFYIPAVLRV HLLQVVKRRRIKN+LSRKN++
Sbjct: 117 WKRAICLEFMEKADVLEYYDQTVNSPSGSFYIPAVLRVPHLLQVVKRRRIKNSLSRKNIL 176

Query: 175 YRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           YRDN+TCQYCSS E+LTIDHV+P SRGGEW WENLV
Sbjct: 177 YRDNYTCQYCSSHESLTIDHVLPISRGGEWTWENLV 212

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123804|ref|XP_002319168.1| predicted protein [Populus trichocarpa] gi|222857544|gb|EEE95091.1| predicted protein [Populus trichocarpa]

 Score =  264 bits (675), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 142/216 (65%), Positives = 163/216 (75%), Gaps = 18/216 (8%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIR------PRNGV 54
           MAQ T+ G L   FN DG+S+ +   D        GLRS +  KRK IR       R   
Sbjct: 1   MAQFTAHGRLKFPFNNDGASWKLLGND-----FVGGLRSFQNQKRK-IRFLGTSGTRLYA 54

Query: 55  WSSMNKKKSSKFSVDASLNVSGKGISGESEEYDSDEEFDELACFRGLVLDISYRPVNVVC 114
            SS++KK    F  +AS +VS   ++ +SEE   D E DELACFRGLVLDISYRPVNVVC
Sbjct: 55  ASSLSKK-PKHFYTEASQSVSE--VNDDSEE---DYERDELACFRGLVLDISYRPVNVVC 108

Query: 115 WKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLM 174
           W+RAICLEFMEKADVLEYYDQ +NSP+GSFYIPAVLRV HLLQVVKRRRIK+NLSRKN++
Sbjct: 109 WRRAICLEFMEKADVLEYYDQAVNSPSGSFYIPAVLRVPHLLQVVKRRRIKSNLSRKNIL 168

Query: 175 YRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           YRDN+TCQYCSSRENLTIDHV+P +RGGEWKWENLV
Sbjct: 169 YRDNYTCQYCSSRENLTIDHVLPTARGGEWKWENLV 204

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388521737|gb|AFK48930.1| unknown [Lotus japonicus]

 Score =  253 bits (646), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 135/231 (58%), Positives = 164/231 (70%), Gaps = 25/231 (10%)

Query: 1   MAQITSQGGLNLLFNGD-GSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIR----PRNGVW 55
           MAQ T+ G L LLFNG+ GSS     + PF YK     RS    KR+  R       G+ 
Sbjct: 27  MAQFTTHGRLKLLFNGEVGSSILEHNKGPFHYKCS---RSALTRKRRPTRYMGSSAGGIL 83

Query: 56  ---SSMNKKKSSKFSVDASLNVSGKGISGESEEYDSD--EEFDE-----------LACFR 99
              +S  + K+++ + +A      +G+  E E YDSD  E+FD            L+CFR
Sbjct: 84  RYATSSMRNKANRCNAEARFTAGNEGVHDEYE-YDSDGVEDFDYEDDVFGFDGDGLSCFR 142

Query: 100 GLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVV 159
           GLVLD++YRPVNVVCWKRAICLEFMEKADVLEYY++T+NSP+GSFYIPAVLRV HLLQVV
Sbjct: 143 GLVLDLAYRPVNVVCWKRAICLEFMEKADVLEYYEKTVNSPSGSFYIPAVLRVPHLLQVV 202

Query: 160 KRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           KRR +KNNLSRKN+++RD+FTCQYCSSRENLTIDHVVPA+ GGEW WENL+
Sbjct: 203 KRRIVKNNLSRKNILFRDHFTCQYCSSRENLTIDHVVPAALGGEWTWENLI 253

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571688|ref|XP_003554006.1| PREDICTED: uncharacterized protein LOC100787021 isoform 1 [Glycine max] gi|356571690|ref|XP_003554007.1| PREDICTED: uncharacterized protein LOC100787021 isoform 2 [Glycine max]

 Score =  242 bits (618), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 132/229 (57%), Positives = 153/229 (66%), Gaps = 24/229 (10%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKLGSGLRSIEVHKRKLIRPRNGVWSSMNK 60
           MAQ T+QG L LL NG+G S  +E +DPF YK     RS++ HKR+  R           
Sbjct: 1   MAQFTTQGRLKLLLNGEGVSSVLEHKDPFLYKC----RSVQTHKRR-TRYAGSSARIYYA 55

Query: 61  KKSSKFSVDASLNVSGKGISGESEEYDSDE-------------------EFDELACFRGL 101
             SS  S     N   +  SG    +D  +                   + D L+CFRGL
Sbjct: 56  STSSLSSKSHRCNAEARHTSGNGSVHDEYDDIDDDEDEDDEEEEEEDVFDRDGLSCFRGL 115

Query: 102 VLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKR 161
           VLDI+YRPVNVV WKRAICLEFMEKADVLEYY +T+NSP+GSFYIPAVLRV HLLQVVKR
Sbjct: 116 VLDIAYRPVNVVGWKRAICLEFMEKADVLEYYAKTVNSPSGSFYIPAVLRVPHLLQVVKR 175

Query: 162 RRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           R IKNNLSRKN+++RDN+TCQYCSS ENLTIDHVVPA+ GGEW WENLV
Sbjct: 176 RIIKNNLSRKNILFRDNYTCQYCSSHENLTIDHVVPAALGGEWTWENLV 224

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297853378|ref|XP_002894570.1| HNH endonuclease domain-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297340412|gb|EFH70829.1| HNH endonuclease domain-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  239 bits (611), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 125/217 (57%), Positives = 156/217 (71%), Gaps = 9/217 (4%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQ---YKLGSGLRSIEVHKRKL---IRPRNGV 54
           MA  +S+  L LL + DG SFGV+ RD F+   Y  G G   + + + +L    R  +  
Sbjct: 1   MAHFSSR--LKLLSSNDGLSFGVDSRDQFRQSLYMAGGGTPLVSIRRSRLKFCARIFSSY 58

Query: 55  WSSMNKKKSSKF-SVDASLNVSGKGISGESEEYDSDEEFDELACFRGLVLDISYRPVNVV 113
                +KK   F + + +L +       + +  D   E D+L+CFRGLVLDISYRPVNVV
Sbjct: 59  SFPYKRKKIRDFDNTEKNLGIDEDNDDWDFDGDDDVLETDDLSCFRGLVLDISYRPVNVV 118

Query: 114 CWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNL 173
           CWKRAICLE+M+KADVLEYYDQT++SP GSFYIPAVLRV HLLQVVKRRR+KN+LSRKN+
Sbjct: 119 CWKRAICLEYMDKADVLEYYDQTVSSPTGSFYIPAVLRVPHLLQVVKRRRVKNSLSRKNI 178

Query: 174 MYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           + RD++TCQYCSSRENLTIDHV+P SRGGEW W+NLV
Sbjct: 179 LLRDDYTCQYCSSRENLTIDHVMPVSRGGEWSWQNLV 215

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560967|ref|XP_003548757.1| PREDICTED: uncharacterized protein LOC100810482 [Glycine max]

 Score =  237 bits (604), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 131/222 (59%), Positives = 157/222 (70%), Gaps = 16/222 (7%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEP-RDPFQYKLGSGLRSIEVHKRKLIR-----PRNGV 54
           MAQ T+QG L LLFNG+G S  +E  +DPF Y   +  RS++ HKR+  R      R   
Sbjct: 1   MAQFTTQGRLKLLFNGEGVSSVLEHNKDPFLY---NKCRSVQTHKRRTTRCIGSSARIYY 57

Query: 55  WSSMNKKKSSKFSVDASLNVSGKG------ISGESEEYDSDEEFDELACFRGLVLDISYR 108
            SS    K+   + +A L  SG G           ++ D   + D L+CFRGLVLDI+YR
Sbjct: 58  VSSSLSNKTHLCNAEAWLT-SGNGSVHDEYDDDVEDDDDDVFDRDGLSCFRGLVLDIAYR 116

Query: 109 PVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNL 168
           PVNVV WKRAICLEFMEKADVLEYY +T+NSP+GSFYIPAVLRV  LLQVVKRR +KNNL
Sbjct: 117 PVNVVGWKRAICLEFMEKADVLEYYAKTVNSPSGSFYIPAVLRVPQLLQVVKRRIVKNNL 176

Query: 169 SRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           SRKN+++RDN+TCQYCSS ENLTIDHV+P + GGEW WENLV
Sbjct: 177 SRKNILFRDNYTCQYCSSHENLTIDHVMPTALGGEWTWENLV 218

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30682222|ref|NP_179964.2| HNH endonuclease [Arabidopsis thaliana] gi|38603958|gb|AAR24724.1| At2g23840 [Arabidopsis thaliana] gi|44681452|gb|AAS47666.1| At2g23840 [Arabidopsis thaliana] gi|330252404|gb|AEC07498.1| HNH endonuclease [Arabidopsis thaliana]

 Score =  235 bits (599), Expect = 9e-60,   Method: Compositional matrix adjust.
 Identities = 125/218 (57%), Positives = 157/218 (72%), Gaps = 10/218 (4%)

Query: 1   MAQITSQGGLNLLFNGDGSSFGVEPRDPFQYKL-----GSGLRSIEVHKRKLIRPRNGVW 55
           MA  +++  L LL + DG SFGV+ RD F+  L     GS L  I + + K        +
Sbjct: 1   MAHFSAR--LKLLSSNDGLSFGVDSRDQFRQSLYMAGGGSPLVPIRMSRLKFCARIFSSY 58

Query: 56  SSMNKKKSSKF--SVDASLNVSGKGISGESEEYDSDEEFDE-LACFRGLVLDISYRPVNV 112
           S   K+K  +   + + +L++       + +  D   E D+ L+CFRGLVLDISYRPVNV
Sbjct: 59  SFPYKRKKIRDLDNTEKNLDIDEDNDEWDFDGDDDGLETDDHLSCFRGLVLDISYRPVNV 118

Query: 113 VCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKN 172
           VCWKRAICLE+M+KADVLEYYDQT++SP GSFYIPAVLRV HLLQVVKRRR+KN+LSRKN
Sbjct: 119 VCWKRAICLEYMDKADVLEYYDQTVSSPTGSFYIPAVLRVPHLLQVVKRRRVKNSLSRKN 178

Query: 173 LMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
           ++ RD++TCQYCSSRENLTIDHV+P SRGGEW W+NLV
Sbjct: 179 ILLRDDYTCQYCSSRENLTIDHVMPVSRGGEWTWQNLV 216

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	210
TAIR|locus:2061476	284	AT2G23840 [Arabidopsis thalian	0.552	0.408	0.844	1.1e-58
UNIPROTKB|Q0BWS6	197	HNE_3394 "HNH endonuclease dom	0.485	0.517	0.358	5.3e-17
TIGR_CMR|SPO_2123	194	SPO_2123 "HNH endonuclease fam	0.485	0.525	0.367	2.3e-16
UNIPROTKB|O53196	222	Rv2469c "Uncharacterized prote	0.514	0.486	0.391	3.7e-16
UNIPROTKB|Q3Z918	177	DET0537 "HNH endonuclease doma	0.509	0.604	0.387	3.3e-15
TIGR_CMR|DET_0537	177	DET_0537 "HNH endonuclease dom	0.509	0.604	0.387	3.3e-15

TAIR|locus:2061476 AT2G23840 [Arabidopsis thaliana (taxid:3702)]

 Score = 553 (199.7 bits), Expect = 1.1e-58, Sum P(2) = 1.1e-58
 Identities = 98/116 (84%), Positives = 111/116 (95%)

Query:    95 LACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRH 154
             L+CFRGLVLDISYRPVNVVCWKRAICLE+M+KADVLEYYDQT++SP GSFYIPAVLRV H
Sbjct:   101 LSCFRGLVLDISYRPVNVVCWKRAICLEYMDKADVLEYYDQTVSSPTGSFYIPAVLRVPH 160

Query:   155 LLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
             LLQVVKRRR+KN+LSRKN++ RD++TCQYCSSRENLTIDHV+P SRGGEW W+NLV
Sbjct:   161 LLQVVKRRRVKNSLSRKNILLRDDYTCQYCSSRENLTIDHVMPVSRGGEWTWQNLV 216

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0009269 "response to desiccation" evidence=RCA

GO:0009409 "response to cold" evidence=RCA

GO:0009651 "response to salt stress" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=RCA

UNIPROTKB|Q0BWS6 HNE_3394 "HNH endonuclease domain protein" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 38/106 (35%), Positives = 63/106 (59%)

Query:   105 ISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRI 164
             +SY P+++  W+  I   F+++ D++  YD  + SP+    +P+V+ +R     V++ R 
Sbjct:    34 LSYYPLSLWPWQEVIKAVFLDRVDIIAEYDYVVRSPSREMRLPSVIALRDF---VRQDRA 90

Query:   165 KNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
                 +R N+  RD F C YC + +NLT DHV+P S+GG   WEN+V
Sbjct:    91 PA-FTRFNVFLRDGFKCAYCGAHDNLTFDHVIPRSKGGRTTWENIV 135

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SPO_2123 SPO_2123 "HNH endonuclease family protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 203 (76.5 bits), Expect = 2.3e-16, P = 2.3e-16
 Identities = 39/106 (36%), Positives = 64/106 (60%)

Query:   105 ISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRI 164
             +SY P+++  W+ AI   ++++ D++  YD+ + SP+    IP+V+ ++  ++  KR   
Sbjct:    31 LSYYPLSLWPWQEAIKAAWLDRVDIIAEYDEVVRSPSVVLRIPSVVVLKDYVKPQKRVAF 90

Query:   165 KNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
                 +R NL  RD F CQYC  + +LT DHVVP + GG   WEN+V
Sbjct:    91 ----TRFNLFLRDEFRCQYCGGKGDLTFDHVVPRAAGGVTSWENVV 132

GO:0003824 "catalytic activity" evidence=ISS

GO:0006259 "DNA metabolic process" evidence=ISS

UNIPROTKB|O53196 Rv2469c "Uncharacterized protein" [Mycobacterium tuberculosis H37Rv (taxid:83332)]

 Score = 201 (75.8 bits), Expect = 3.7e-16, P = 3.7e-16
 Identities = 45/115 (39%), Positives = 70/115 (60%)

Query:    99 RGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQT---INSPNGSFYIPAVLRVRHL 155
             R L+L+ +Y P+  +  +RAI +    KADV+ + D +   I+S   S  +P+V+++R  
Sbjct:    56 RVLLLNSTYEPLTALSMRRAIVMVICGKADVV-HEDPSGPVIHSATRSILVPSVIQLRSY 114

Query:   156 LQVVKRRRIKNNLSRKNLMYRDNFTCQYCSSRENLTIDHVVPASRGGEWKWENLV 210
             ++V  R R+   ++R  LM+RD F C YC  + + T+DHVVP SRGG   WEN V
Sbjct:   115 VRVPYRARVP--MTRAALMHRDRFCCAYCGGKAD-TVDHVVPRSRGGAHSWENCV 166

GO:0005576 "extracellular region" evidence=IDA

UNIPROTKB|Q3Z918 DET0537 "HNH endonuclease domain protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 43/111 (38%), Positives = 65/111 (58%)

Query:   101 LVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVK 160
             LVL+  Y+P+NV   +RA+ L +  KA++LE      +S    F +P+V+R+  L   +K
Sbjct:     7 LVLNQDYQPLNVCHVRRAVLLVYQSKAEMLENGSGFWHSEKDLFALPSVIRLSCL---IK 63

Query:   161 RRRIKNNLSRKNLMYRDNFTCQYCSSRE-NLTIDHVVPASRGGEWKWENLV 210
                ++  L+R  +  RD  TCQYC  ++  LTIDHV P  +GG   WEN+V
Sbjct:    64 HPPLRPKLNRAEIFSRDKHTCQYCGRKDLELTIDHVNPKHQGGPHVWENVV 114

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|DET_0537 DET_0537 "HNH endonuclease domain protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 43/111 (38%), Positives = 65/111 (58%)

Query:   101 LVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVK 160
             LVL+  Y+P+NV   +RA+ L +  KA++LE      +S    F +P+V+R+  L   +K
Sbjct:     7 LVLNQDYQPLNVCHVRRAVLLVYQSKAEMLENGSGFWHSEKDLFALPSVIRLSCL---IK 63

Query:   161 RRRIKNNLSRKNLMYRDNFTCQYCSSRE-NLTIDHVVPASRGGEWKWENLV 210
                ++  L+R  +  RD  TCQYC  ++  LTIDHV P  +GG   WEN+V
Sbjct:    64 HPPLRPKLNRAEIFSRDKHTCQYCGRKDLELTIDHVNPKHQGGPHVWENVV 114


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.323   0.139   0.435    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      210       183   0.00076  110 3  11 22  0.40    32
                                                     31  0.40    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  6
  No. of states in DFA:  603 (64 KB)
  Total size of DFA:  174 KB (2101 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  14.47u 0.12s 14.59t   Elapsed:  00:00:00
  Total cpu time:  14.47u 0.12s 14.59t   Elapsed:  00:00:00
  Start:  Fri May 10 14:41:50 2013   End:  Fri May 10 14:41:50 2013

GO:0003824 "catalytic activity" evidence=ISS

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00025489001	SubName- Full=Chromosome chr8 scaffold_34, whole genome shotgun sequence; (276 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00022843001	SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (447 aa)	•								0.506
	GSVIVG00023128001	SubName- Full=Chromosome chr8 scaffold_29, whole genome shotgun sequence; (370 aa)							•		0.468

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	210
COG1403	146	COG1403, McrA, Restriction endonuclease [Defense m	4e-12
cd00085	57	cd00085, HNHc, HNH nucleases; HNH endonuclease sig	3e-05
pfam01844	47	pfam01844, HNH, HNH endonuclease	7e-05
smart00507	52	smart00507, HNHc, HNH nucleases	1e-04

>gnl|CDD|224321 COG1403, McrA, Restriction endonuclease [Defense mechanisms]

 Score = 61.1 bits (148), Expect = 4e-12
 Identities = 29/97 (29%), Positives = 46/97 (47%), Gaps = 4/97 (4%)

Query: 115 WKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLM 174
            + A+     ++A  +  Y   + S +     P+V  +    +    +R      R+ ++
Sbjct: 9   IRPALDRLVSQRAKHVAEYPC-LASESKDLRRPSVTDLTGESKRPSEKRPAKT--RRAVL 65

Query: 175 YRDNFTCQYCSS-RENLTIDHVVPASRGGEWKWENLV 210
            RDN  CQYC S   +L +DH+VP SRGG   WENL 
Sbjct: 66  LRDNGLCQYCGSVGTDLEVDHIVPLSRGGASAWENLE 102

Length = 146

>gnl|CDD|238038 cd00085, HNHc, HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins

 Score = 40.1 bits (94), Expect = 3e-05
 Identities = 18/44 (40%), Positives = 23/44 (52%), Gaps = 4/44 (9%)

Query: 170 RKNLMYRDNFTCQYC---SSRENLTIDHVVPASRGGEWKWENLV 210
           R  L+ RD   C YC      E L +DH++P S GG    +NLV
Sbjct: 4   RLVLLARD-GLCPYCGKPGGTEGLEVDHIIPLSDGGNNDLDNLV 46

The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins. Length = 57

>gnl|CDD|216737 pfam01844, HNH, HNH endonuclease

 Score = 38.8 bits (91), Expect = 7e-05
 Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 4/34 (11%)

Query: 181 CQYC----SSRENLTIDHVVPASRGGEWKWENLV 210
           CQYC       + L +DH++P S+GG     NLV
Sbjct: 1   CQYCGRPFKDTDALEVDHIIPRSKGGADDLSNLV 34

Length = 47

>gnl|CDD|214702 smart00507, HNHc, HNH nucleases

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 3/43 (6%)

Query: 170 RKNLMYRDNFTCQYCSSREN--LTIDHVVPASRGGEWKWENLV 210
           R+ L++RD   C YC    +  L +DH++P S GG    +NLV
Sbjct: 3   RRLLLHRD-GVCAYCGKPASEGLEVDHIIPLSDGGNDDLDNLV 44

Length = 52

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	210
COG1403	146	McrA Restriction endonuclease [Defense mechanisms]	99.52
smart00507	52	HNHc HNH nucleases.	98.96
cd00085	57	HNHc HNH nucleases; HNH endonuclease signature whi	98.83
PF13395	54	HNH_4: HNH endonuclease	98.66
TIGR01865	805	cas_Csn1 CRISPR-associated protein, Csn1 family. C	98.57
PF01844	47	HNH: HNH endonuclease; InterPro: IPR002711 HNH end	98.37
TIGR02646	144	conserved hypothetical protein TIGR02646. Members	98.06
PRK11295	113	hypothetical protein; Provisional	97.68
PF14279	71	HNH_5: HNH endonuclease	96.5
TIGR03031	802	cas_csx12 CRISPR-associated protein, Csx12 family.	93.68
COG3513	1088	Predicted CRISPR-associated nuclease, contains Mcr	92.09
smart00782	47	PhnA_Zn_Ribbon PhnA Zinc-Ribbon. This protein fami	90.49
PF14239	176	RRXRR: RRXRR protein	90.3
PF05198	76	IF3_N: Translation initiation factor IF-3, N-termi	85.34

>COG1403 McrA Restriction endonuclease [Defense mechanisms]

Probab=99.52  E-value=1.2e-14  Score=111.10  Aligned_cols=101  Identities=30%  Similarity=0.519  Sum_probs=87.9

Q ss_pred             CceeeeecHHHHHHHHHhCCeeEEEecCCeeeCCCcceecCeEEEEecceeeeeccccCChhhHHHHHhHcCCcccccCC
Q 028336          107 YRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQVVKRRRIKNNLSRKNLMYRDNFTCQYCSS  186 (210)
Q Consensus       107 y~Pl~~vswqrAi~Ll~~gkAevle~~~~~IrS~sg~~~vPsVIrL~~yv~~p~r~~~~~~~tR~~Vl~RD~~~CqYCG~  186 (210)
                      |.|....+|++++..+..+.|..+..+. ...++.....+|.+..+..+...+...  .++.+|.+++.||.+.|+|||.
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~r~~~~~~d~~~c~~c~~   77 (146)
T COG1403           1 YNPLESKSIRPALDRLVSQRAKHVAEYP-CLASESKDLRRPSVTDLTGESKRPSEK--RPAKTRRAVLLRDNGLCQYCGS   77 (146)
T ss_pred             CccccccchhHHHHHHhhcccccccCcc-eecceecccccCccceeeeeecccCCC--CchHHHHHHHccccccccccCC
Confidence            5788999999999999999999887654 455667788899999999887766543  5789999999999999999998


Q ss_pred             Cc-CCeeCeeecCcCCCCCCcCcCC
Q 028336          187 RE-NLTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       187 ~~-~LtvDHIIPrSrGG~dtweNLV  210 (210)
                      .. .+++|||||++.||.+.|+||+
T Consensus        78 ~~~~~~~dHiip~~~g~~~~~~Nl~  102 (146)
T COG1403          78 VGTDLEVDHIVPLSRGGASAWENLE  102 (146)
T ss_pred             cCCCCceeeEeecccCCcchHHHHH
Confidence            74 7999999999999999999974

>smart00507 HNHc HNH nucleases

Probab=98.96  E-value=3.7e-10  Score=72.94  Aligned_cols=41  Identities=41%  Similarity=0.784  Sum_probs=37.3

Q ss_pred             hHHHHHhHcCCcccccCCCc--CCeeCeeecCcCCCCCCcCcCC
Q 028336          169 SRKNLMYRDNFTCQYCSSRE--NLTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       169 tR~~Vl~RD~~~CqYCG~~~--~LtvDHIIPrSrGG~dtweNLV  210 (210)
                      .|..++.|| +.|+|||.+.  .+++|||+|.+.||.++++||+
T Consensus         2 ~~~~~~~r~-~~C~~C~~~~~~~~~v~Hi~p~~~~~~~~~~Nl~   44 (52)
T smart00507        2 LRRLLLHRD-GVCAYCGKPASEGLEVDHIIPLSDGGNDDLDNLV   44 (52)
T ss_pred             HHHHHHHHC-CCCcCCcCCCCCCeEEEecCChhcCCCCChHhCe
Confidence            467899999 9999999885  4999999999999999999985

>cd00085 HNHc HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins

Probab=98.83  E-value=1.4e-09  Score=71.39  Aligned_cols=41  Identities=44%  Similarity=0.799  Sum_probs=37.3

Q ss_pred             hHHHHHhHcCCcccccCCC---cCCeeCeeecCcCCCCCCcCcCC
Q 028336          169 SRKNLMYRDNFTCQYCSSR---ENLTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       169 tR~~Vl~RD~~~CqYCG~~---~~LtvDHIIPrSrGG~dtweNLV  210 (210)
                      .|..+++|| +.|+|||..   ..+++|||+|.+.||.++++||+
T Consensus         3 ~r~~~~~~~-~~C~~c~~~~~~~~~~v~Hi~p~~~~~~~~~~Nl~   46 (57)
T cd00085           3 HRLVLLARD-GLCPYCGKPGGTEGLEVDHIIPLSDGGNNDLDNLV   46 (57)
T ss_pred             HHHHHHHhC-CcCccCCCcCCCCCceEEeecchhhCCCCchHHhH
Confidence            578899999 999999984   67999999999999999999985

The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and anaredoxins.

>PF13395 HNH_4: HNH endonuclease

Probab=98.66  E-value=9.6e-09  Score=71.17  Aligned_cols=30  Identities=53%  Similarity=1.039  Sum_probs=27.5

Q ss_pred             ccccCCC---cC-----CeeCeeecCcCCCCCCcCcCC
Q 028336          181 CQYCSSR---EN-----LTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       181 CqYCG~~---~~-----LtvDHIIPrSrGG~dtweNLV  210 (210)
                      |.|||.+   ..     .++|||+|+|++|.+++.|+|
T Consensus         1 C~Y~g~~i~~~~l~~~~~~iDHiiP~s~~~~~s~~Nlv   38 (54)
T PF13395_consen    1 CPYCGKPISIENLFKNKYEIDHIIPRSRGGDDSFWNLV   38 (54)
T ss_pred             CCCCCCCCChhhcccCCceeEEEecccccCCCCcchhh
Confidence            9999987   33     799999999999999999997

>TIGR01865 cas_Csn1 CRISPR-associated protein, Csn1 family

Probab=98.57  E-value=2e-08  Score=100.97  Aligned_cols=45  Identities=31%  Similarity=0.512  Sum_probs=39.8

Q ss_pred             ChhhHHHHHhHcCCcccccCCC---c------CCeeCeeecCcCCCCCCcCcCC
Q 028336          166 NNLSRKNLMYRDNFTCQYCSSR---E------NLTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       166 ~~~tR~~Vl~RD~~~CqYCG~~---~------~LtvDHIIPrSrGG~dtweNLV  210 (210)
                      ....|..++.+++++|+|||.+   .      .++||||||.|+||.|+|+|+|
T Consensus       569 ~~~~k~~L~~~q~~~C~Y~g~~i~~~~l~~~~~~~iDHIiP~s~~~dds~~N~v  622 (805)
T TIGR01865       569 KNILKLRLYYQQNGKCMYTGKEIDIDDLFDLSYYEIDHILPQSRSFDDSISNKV  622 (805)
T ss_pred             hHHHHHHHHHHcCCcCCCCCCcCccccccCCCCCceeeecccccCCCCcHHHHH
Confidence            3456888999999999999987   2      4789999999999999999986

CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.

>PF01844 HNH: HNH endonuclease; InterPro: IPR002711 HNH endonuclease is found in bacteria and viruses [, , ]

Probab=98.37  E-value=7.5e-08  Score=62.91  Aligned_cols=30  Identities=47%  Similarity=1.043  Sum_probs=20.4

Q ss_pred             ccccCCC----cCCeeCeeecCcCCCCCCcCcCC
Q 028336          181 CQYCSSR----ENLTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       181 CqYCG~~----~~LtvDHIIPrSrGG~dtweNLV  210 (210)
                      |+|||.+    ..+++|||+|.+.||.++++||+
T Consensus         1 C~~C~~~~~~~~~~~v~Hi~~~~~gg~~~~~Nl~   34 (47)
T PF01844_consen    1 CQYCGKPGSDNESLHVHHIIPRSKGGKNDLENLI   34 (47)
T ss_dssp             -TTT--B--GG-GEEEEESS-TTTT---STTTEE
T ss_pred             CCCCCCcCccCcceEeECcCchhcCCCCCHHHHH
Confidence            9999987    46899999999999999999984

This family includes pyocins, colicins and anaredoxins.; GO: 0003676 nucleic acid binding, 0004519 endonuclease activity; PDB: 2QGP_C.

>TIGR02646 conserved hypothetical protein TIGR02646

Probab=98.06  E-value=3.1e-06  Score=68.58  Aligned_cols=44  Identities=23%  Similarity=0.442  Sum_probs=38.4

Q ss_pred             hhhHHHHHhHcCCcccccCCC---cCCeeCeeecCcCCCC--CCcCcCC
Q 028336          167 NLSRKNLMYRDNFTCQYCSSR---ENLTIDHVVPASRGGE--WKWENLV  210 (210)
Q Consensus       167 ~~tR~~Vl~RD~~~CqYCG~~---~~LtvDHIIPrSrGG~--dtweNLV  210 (210)
                      ...|..|++..+++|.||+..   ..++|||++|++..+.  -+|+||+
T Consensus        13 ~~i~~~L~~~~~~~C~YC~~~~~~~~~~ieH~~Pk~~~~~~~~~~~NL~   61 (144)
T TIGR02646        13 DEVHNQLLQLQGGLCAYCEREIELLGSHIEHFRPKGAYPPLTLDWSNLF   61 (144)
T ss_pred             HHHHHHHHHHhCCCcCccCCCcCCCCcceeeecccCCChhhhcChhhch
Confidence            468889999999999999984   6699999999998874  6789985

Members of this uncharacterized protein family are found exclusively in bacteria. Neighboring genes in various genomes are also uncharacterized or may annotated as similar to restriction system proteins.

>PRK11295 hypothetical protein; Provisional

Probab=97.68  E-value=2.1e-05  Score=63.21  Aligned_cols=44  Identities=18%  Similarity=0.255  Sum_probs=37.9

Q ss_pred             ChhhHHHHHhHcCCcccccCCC------cCCeeCeeecCcCCCCCCcCcC
Q 028336          166 NNLSRKNLMYRDNFTCQYCSSR------ENLTIDHVVPASRGGEWKWENL  209 (210)
Q Consensus       166 ~~~tR~~Vl~RD~~~CqYCG~~------~~LtvDHIIPrSrGG~dtweNL  209 (210)
                      ....|+.+|.|+.+.|+.|++.      ..++||||+|...|+.+.-+||
T Consensus        12 ~~~~R~~~L~r~p~lC~~Cgr~~~~a~~~a~vVDHIip~~~gd~~D~sNL   61 (113)
T PRK11295         12 ESGYREKALKLYPWVCGRCSREFVYSNLRELTVHHIDHDHDNNPEDGSNW   61 (113)
T ss_pred             HHHHHHHHHHHCcchhhhhcChhccCCCCCceeeccCCCCCCCCCchhHH
Confidence            4568999999999999999985      3579999999999988777776

>PF14279 HNH_5: HNH endonuclease

Probab=96.50  E-value=0.0011  Score=48.86  Aligned_cols=28  Identities=39%  Similarity=0.921  Sum_probs=24.0

Q ss_pred             ccccCCC---cCCeeCeeecCcCCCCCCcCc
Q 028336          181 CQYCSSR---ENLTIDHVVPASRGGEWKWEN  208 (210)
Q Consensus       181 CqYCG~~---~~LtvDHIIPrSrGG~dtweN  208 (210)
                      |.||++.   ...|.+||||.|-||..++.|
T Consensus         1 Ci~C~~~~~~~~~s~EHIIP~sLGG~~~~~~   31 (71)
T PF14279_consen    1 CIYCNKEKSESNFSEEHIIPESLGGKLKINN   31 (71)
T ss_pred             CccCCCCCCccCCCccccCchhcCCcccccc
Confidence            8999987   446799999999999887766

>TIGR03031 cas_csx12 CRISPR-associated protein, Csx12 family

Probab=93.68  E-value=0.043  Score=55.33  Aligned_cols=30  Identities=23%  Similarity=0.296  Sum_probs=24.3

Q ss_pred             HhHcCCcccccCCC--cCCeeCeeecCcCCCC
Q 028336          174 MYRDNFTCQYCSSR--ENLTIDHVVPASRGGE  203 (210)
Q Consensus       174 l~RD~~~CqYCG~~--~~LtvDHIIPrSrGG~  203 (210)
                      -.=..+.|+|||..  ..-++|||+|||+-|+
T Consensus       756 k~fs~gIcpY~Ga~iG~~gEiDHI~PRSht~k  787 (802)
T TIGR03031       756 KNFSMGICPYKGASIGGQGEIDHIYPRSHSKK  787 (802)
T ss_pred             HHHhccCCCCCCCCCCCccccccccccccccc
Confidence            33357899999987  5679999999998665

Members of this family of CRISPR-associated (cas) protein are found, so far, in CRISPR/cas loci in Wolinella succinogenes DSM 1740, Legionella pneumophila str. Paris, and Francisella tularensis, where the last probably is an example of a degenerate CRISPR locus, having neither repeats nor a functional Cas1. The characteristic repeat length is 37 base pairs and period is about 72. One region of this large protein shows sequence similarity to PFAM model pfam01844, HNH endonuclease.

>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]

Probab=92.09  E-value=0.1  Score=54.27  Aligned_cols=42  Identities=33%  Similarity=0.505  Sum_probs=35.8

Q ss_pred             hHHHHHhHcCCcccccCCC------cC---CeeCeeecCcCCCCCCcCcCC
Q 028336          169 SRKNLMYRDNFTCQYCSSR------EN---LTIDHVVPASRGGEWKWENLV  210 (210)
Q Consensus       169 tR~~Vl~RD~~~CqYCG~~------~~---LtvDHIIPrSrGG~dtweNLV  210 (210)
                      .+-.++.-+++.|.|-|+.      .+   ..||||+|-|+-=.|+.+|.|
T Consensus       562 lKLrLY~~Q~gkcmYsgqei~I~rL~dk~~~eIDHi~P~Sr~~DDS~~NkV  612 (1088)
T COG3513         562 LKLRLYYLQNGKCMYSGQEIDIHRLSDKGYYEIDHIVPQSRTWDDSIDNKV  612 (1088)
T ss_pred             hHHHHHHHhcCcccccCcccchhhcccccceeeceecccccccccccccee
Confidence            3456888999999999986      33   899999999998888888876

>smart00782 PhnA_Zn_Ribbon PhnA Zinc-Ribbon

Probab=90.49  E-value=0.25  Score=34.09  Aligned_cols=33  Identities=27%  Similarity=0.380  Sum_probs=27.5

Q ss_pred             HHhHcCCcccccCCCcCCeeCeeecCcCCCCCC
Q 028336          173 LMYRDNFTCQYCSSRENLTIDHVVPASRGGEWK  205 (210)
Q Consensus       173 Vl~RD~~~CqYCG~~~~LtvDHIIPrSrGG~dt  205 (210)
                      ++.|-+..|..||....|++-+|-|.+.|+.+.
T Consensus         2 L~~Rs~~kCELC~a~~~L~vy~Vpp~~~~~~d~   34 (47)
T smart00782        2 LLARCESKCELCGSDSPLVVYAVPPSSDVTADN   34 (47)
T ss_pred             hhHHcCCcccCcCCCCCceEEecCCCCCCCccc
Confidence            678999999999998889999987777666543

This protein family includes an uncharacterised member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterised phosphonoacetate hydrolase designated PhnA.

>PF14239 RRXRR: RRXRR protein

Probab=90.30  E-value=0.4  Score=41.30  Aligned_cols=34  Identities=32%  Similarity=0.224  Sum_probs=31.5

Q ss_pred             EEEEcCCCceeeeecHHHHHHHHHhCCeeEEEec
Q 028336          100 GLVLDISYRPVNVVCWKRAICLEFMEKADVLEYY  133 (210)
Q Consensus       100 VLVLNasy~Pl~~vswqrAi~Ll~~gkAevle~~  133 (210)
                      |.|||.++.||.-+...+|=.|+-.|||.|+..+
T Consensus         1 VfVld~~gkPLmP~~p~rAR~LLk~GkA~V~r~~   34 (176)
T PF14239_consen    1 VFVLDKNGKPLMPCHPARARKLLKQGKAKVVRRY   34 (176)
T ss_pred             CeEECCCCCcCCCCCHHHHHHHHHCCCEEEEecC
Confidence            6799999999999999999999999999888744

>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria

Probab=85.34  E-value=4.2  Score=30.30  Aligned_cols=55  Identities=20%  Similarity=0.266  Sum_probs=38.2

Q ss_pred             ccCcceEEEEcCCCceeeeecHHHHHHHHHhCCeeEEEecCCeeeCCCcceecCeEEEEeccee
Q 028336           94 ELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQ  157 (210)
Q Consensus        94 ~~~~~rVLVLNasy~Pl~~vswqrAi~Ll~~gkAevle~~~~~IrS~sg~~~vPsVIrL~~yv~  157 (210)
                      .+..+.|.++|.+++.+++++.++|+.+--.-..+.++..      ++..   |.|.+|..|-+
T Consensus         9 ~I~~~~VrlI~~~g~~lGv~~~~eAl~~A~~~~lDLV~v~------~~~~---PPVcKi~dy~k   63 (76)
T PF05198_consen    9 EIRAPEVRLIDEDGEQLGVMSLREALRLAKEKGLDLVEVS------PNAD---PPVCKIMDYGK   63 (76)
T ss_dssp             G---SEEEEE-TTS-EEEEEEHHHHHHHHHHTT-EEEEEE------TTSS---S-EEEEE-HHH
T ss_pred             CcCCCEEEEECCCCcEeceEEHHHHHHHHHHcCCcEEEEc------CCCC---CCeEEEechHH
Confidence            4566889999999999999999999999888888887753      2233   88999987743

IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	210
2qgp_A	112	HNH endonuclease; Q39X46, GMR87, X-RAY, NESG, stru	2e-20

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	210
2qgp_A	112	HNH endonuclease; Q39X46, GMR87, X-RAY, NESG, stru	98.99
1tif_A	78	IF3-N, translation initiation factor 3; IF3 N-term	81.24

>1tif_A IF3-N, translation initiation factor 3; IF3 N-terminal domain, ribosome binding factor; 1.80A {Geobacillus stearothermophilus} SCOP: d.15.8.1

Probab=81.24  E-value=5.9  Score=28.96  Aligned_cols=56  Identities=14%  Similarity=0.172  Sum_probs=43.9

Q ss_pred             ccCcceEEEEcCCCceeeeecHHHHHHHHHhCCeeEEEecCCeeeCCCcceecCeEEEEecceee
Q 028336           94 ELACFRGLVLDISYRPVNVVCWKRAICLEFMEKADVLEYYDQTINSPNGSFYIPAVLRVRHLLQV  158 (210)
Q Consensus        94 ~~~~~rVLVLNasy~Pl~~vswqrAi~Ll~~gkAevle~~~~~IrS~sg~~~vPsVIrL~~yv~~  158 (210)
                      .+..+.|.+++.+++.+++++.++|+.+--.-..+.++..      +..   -|.|-++-.|-+.
T Consensus        10 ~Ir~~eVrli~~~Ge~lGv~~~~eAl~~A~e~~LDLVevs------p~a---~PPVCkImDygK~   65 (78)
T 1tif_A           10 QIRAREVRLIDQNGDQLGIKSKQEALEIAARRNLDLVLVA------PNA---KPPVCRIMDYGKF   65 (78)
T ss_dssp             GCCCSEEEEECTTSCEEEEEEHHHHHHHHHHTTCEEEEEE------TTS---SSCEEEEECHHHH
T ss_pred             ccCCCEEEEECCCCcCCCcccHHHHHHHHHHcCCCEEEEC------CCC---CCCEEEEecchhH
Confidence            4566789999999999999999999999777777777753      222   2888999877443

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	210
d1e7la2	103	Recombination endonuclease VII, N-terminal domain	85.32

>d1e7la2 d.4.1.5 (A:1-103) Recombination endonuclease VII, N-terminal domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a+b)
fold: His-Me finger endonucleases
superfamily: His-Me finger endonucleases
family: Recombination endonuclease VII, N-terminal domain
domain: Recombination endonuclease VII, N-terminal domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=85.32  E-value=0.24  Score=36.26  Aligned_cols=31  Identities=16%  Similarity=0.298  Sum_probs=25.2

Q ss_pred             ChhhHHHHHhHcCCcccccCCC-----cCCeeCeee
Q 028336          166 NNLSRKNLMYRDNFTCQYCSSR-----ENLTIDHVV  196 (210)
Q Consensus       166 ~~~tR~~Vl~RD~~~CqYCG~~-----~~LtvDHII  196 (210)
                      .+..++++++.++++|+.||.+     ..+.+||-.
T Consensus         8 ~~ee~~~l~~~Q~g~C~IC~~~~~~~~~~~~vDHdH   43 (103)
T d1e7la2           8 YKEEKQKFYDAQNGKCLICQRELNPDVQANHLDHDH   43 (103)
T ss_dssp             HHHHHHHHHHHTTTBCTTTCCBCCSSGGGSEEEECC
T ss_pred             CHHHHHHHHHHhCCcCCCCCCCcccccccceeeccc
Confidence            3567889999999999999976     347888864