Citrus Sinensis ID: 024593

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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-------220-------230-------240-------250-------260-----
Protein Sequence
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLGKQ
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccccEEEEEEEEEccEEEEEEEEccccEEEEcccccEEEEccccccccccccHHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEcccEEEEccccccccEEEcHHHcccccccccccHHHcccccccccccccHHHHHHHHHHHcccccEEEEEEEccEEEEEEEEcccccHHHHHHHHHcccccEEEEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHccccccEcccccHHHHHHHHHHHHcccccEEEEEEEccccccccccEEEEEEEEcccEEEEEEEcccEEEEEcccccEEEEccccccccccccHHHHHHHHHHHHHHHHHHcccccccccEEEEEEEEcccccccHHHcccccEEEHHHHHHHccccccccHHHHHHccccccccHcHHHHHHHHHHHHccccccEEEEccccEEEEEEEEccccHHHHHHHHHccHccccEEEEEEccHHHHccc
Coil and Loop (DISEMBL)
MWVQILCGLVIYKICKklfydddvldvetsdsnAIFSVAARLEKLYKGkayvglripdpdtgsrqniDIVLITKGEAVVISVKNLSgfvtvnadgswvceavgrhrsaahpdpvaEAKKQASILESYLEQRgvalpegylsykviipnpkfrvinasyfppevisydqwmlmkpenksmLSGWIKGAFRGGKKEMQESIHQQLNFILStapiwdrlevkgnkYVLGEflefkgkqEDIQALRYIKRSKVSRLVVQKtsmfglgkq
Flexible Loop (DISEMBL)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYvglripdpdtgsrqNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHrsaahpdpvAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEflefkgkqedIQALRyikrskvsrlvvqktsmfglgkq
Low Complexity Region (SEG)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLGKQ
Disordered region (IsUnstruct)
*WVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGR******************ILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQK*********
Disordered Region (DISOPRED)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEA***********PVAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGW********************NFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLG**
Disordered Region (DISEMBL)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGR****************ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLGKQ
Disordered Region (DISPRO)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLGKQ
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSMLSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQALRYIKRSKVSRLVVQKTSMFGLGKQ
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	265
224124124	323	predicted protein [Populus trichocarpa]	0.992	0.814	0.753	1e-118
225454722	322	PREDICTED: uncharacterized protein LOC10	0.992	0.816	0.695	1e-109
255635682	319	unknown [Glycine max]	0.992	0.824	0.673	1e-105
356538475	322	PREDICTED: uncharacterized protein LOC10	0.992	0.816	0.673	1e-105
356497409	322	PREDICTED: uncharacterized protein LOC10	0.992	0.816	0.680	1e-105
255638646	322	unknown [Glycine max]	0.992	0.816	0.680	1e-105
15220924	319	uncharacterized protein [Arabidopsis tha	0.981	0.815	0.695	1e-104
297840839	319	hypothetical protein ARALYDRAFT_475506 [	0.981	0.815	0.692	1e-103
6227000	259	EST gb|AI998705 comes from this gene, pa	0.977	1.0	0.698	1e-103
388508826	329	unknown [Lotus japonicus]	0.988	0.796	0.673	1e-103

>gi|224124124|ref|XP_002319251.1| predicted protein [Populus trichocarpa] gi|222857627|gb|EEE95174.1| predicted protein [Populus trichocarpa]

 Score =  430 bits (1105), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 199/264 (75%), Positives = 229/264 (86%), Gaps = 1/264 (0%)

Query: 1   MWVQILCGLVIYKICKKLFYD-DDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDP 59
           MW++I+CGL++YK+CK  F D DDVL V++SD+NA+F+VA +LEKLY GK Y GLRIPD 
Sbjct: 1   MWLEIVCGLIVYKLCKCFFSDADDVLAVQSSDTNALFNVANKLEKLYGGKVYAGLRIPDA 60

Query: 60  DTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKK 119
           DTGSRQNIDIVL+TKGEAVVISVKN SGFV+++ DGSWVCE  GRH+S  HPDPV E KK
Sbjct: 61  DTGSRQNIDIVLVTKGEAVVISVKNFSGFVSISGDGSWVCEGEGRHKSERHPDPVEETKK 120

Query: 120 QASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSM 179
           QASILESYLEQRGVALPEGYLS KV++PNP    I++ YF PEVI+YDQW+L+KPE K +
Sbjct: 121 QASILESYLEQRGVALPEGYLSCKVVLPNPNLHTIHSGYFAPEVITYDQWVLLKPEPKGL 180

Query: 180 LSGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQ 239
            SGWIKGAFRGGKKEMQESIHQ+LNF L TAP+WDRLE+KGNKYVLGEFLEFKGKQED  
Sbjct: 181 FSGWIKGAFRGGKKEMQESIHQKLNFTLRTAPMWDRLELKGNKYVLGEFLEFKGKQEDTM 240

Query: 240 ALRYIKRSKVSRLVVQKTSMFGLG 263
           ALR IKRSKVS L++QKTSMFGL 
Sbjct: 241 ALRNIKRSKVSCLIIQKTSMFGLA 264

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225454722|ref|XP_002272266.1| PREDICTED: uncharacterized protein LOC100263053 [Vitis vinifera] gi|297737284|emb|CBI26485.3| unnamed protein product [Vitis vinifera]

 Score =  400 bits (1029), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 183/263 (69%), Positives = 221/263 (84%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW ++LCGLVIY++ +  F DDDVL+VE +DS A+FSVA ++EKLY GK Y GLRIPD D
Sbjct: 1   MWAELLCGLVIYRVLRYFFSDDDVLEVENTDSGALFSVANKIEKLYDGKVYAGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           TGSR+NID+VL+TKG AVVISVKN SG ++++ADGSWVC A  RH++  HPDPVAEAKK+
Sbjct: 61  TGSRENIDMVLVTKGGAVVISVKNFSGIISIDADGSWVCNAGDRHKAERHPDPVAEAKKR 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
            SILESYLEQRGVALPEGY+S +VI+ NPK+  I++++ P EVI+YDQW  +KPE KS+ 
Sbjct: 121 VSILESYLEQRGVALPEGYVSCQVILANPKYCSIHSNHIPSEVITYDQWTQLKPEAKSLF 180

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           SGW KG  R GKKEMQESIHQ+LNF+LSTAP+WDRLE+KGNKYVLGEFLEFKGK +D QA
Sbjct: 181 SGWFKGGLRAGKKEMQESIHQRLNFVLSTAPMWDRLELKGNKYVLGEFLEFKGKHDDTQA 240

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR IKRSKVSRL++QK SM G  
Sbjct: 241 LRNIKRSKVSRLIIQKFSMLGFA 263

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255635682|gb|ACU18190.1| unknown [Glycine max]

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 177/263 (67%), Positives = 221/263 (84%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+ GLVIY++ ++ FYDDDVLD+E SDS+A+FSVA RL+KLY    YVGLRIPD D
Sbjct: 1   MWLEIIFGLVIYRLFRRFFYDDDVLDIEGSDSSALFSVADRLKKLYGANVYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TK E  VISVKN SG +T+  DG WVCE   +H++  HPDPV EA+KQ
Sbjct: 61  TASRQSIDMVLLTKQELWVISVKNFSGILTIGGDGCWVCEKPDKHKAERHPDPVEEARKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           ASIL+SYLEQRGVALPEGY+S KVI+PNPK   + A  FP EVI++DQW  +KPE KSML
Sbjct: 121 ASILQSYLEQRGVALPEGYISCKVILPNPKLCTVPADGFPSEVITHDQWTRLKPEPKSML 180

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           S W+KGAFR GKK+MQES++Q L+F+L +APIWDR+++KGNKYVLGEFLEFKGKQED++A
Sbjct: 181 SSWVKGAFRSGKKDMQESVNQNLDFVLCSAPIWDRVQLKGNKYVLGEFLEFKGKQEDVEA 240

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR+I+RSKV R+++QKTSMFGL 
Sbjct: 241 LRHIRRSKVGRIIIQKTSMFGLA 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538475|ref|XP_003537729.1| PREDICTED: uncharacterized protein LOC100805402 isoform 1 [Glycine max]

 Score =  387 bits (995), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 177/263 (67%), Positives = 221/263 (84%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+ GLVIY++ ++ FYDDDVLD+E SDS+A+FSVA RL+KLY    YVGLRIPD D
Sbjct: 1   MWLEIIFGLVIYRLFRRFFYDDDVLDIEGSDSSALFSVADRLKKLYGANVYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TK E  VISVKN SG +T+  DG WVCE   +H++  HPDPV EA+KQ
Sbjct: 61  TASRQSIDMVLLTKQELWVISVKNFSGILTIGGDGCWVCEKPDKHKAERHPDPVEEARKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           ASIL+SYLEQRGVALPEGY+S KVI+PNPK   + A  FP EVI++DQW  +KPE KSML
Sbjct: 121 ASILQSYLEQRGVALPEGYISCKVILPNPKLCTVPADGFPSEVITHDQWTRLKPEPKSML 180

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           S W+KGAFR GKK+MQES++Q L+F+L +APIWDR+++KGNKYVLGEFLEFKGKQED++A
Sbjct: 181 SSWVKGAFRSGKKDMQESVNQNLDFVLCSAPIWDRVQLKGNKYVLGEFLEFKGKQEDVEA 240

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR+I+RSKV R+++QKTSMFGL 
Sbjct: 241 LRHIRRSKVGRIIIQKTSMFGLA 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356497409|ref|XP_003517553.1| PREDICTED: uncharacterized protein LOC100795243 [Glycine max]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 179/263 (68%), Positives = 219/263 (83%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+ GLVIYK+ ++ FYDDDVLD+E SDS+A+F VA RL+KLY    YVGLRIPD D
Sbjct: 1   MWLEIIFGLVIYKLFRRFFYDDDVLDIEGSDSSALFFVADRLKKLYGANVYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TK E  VISVKN SG +T+  DGSWVCE   +H++  HPDPV EA+KQ
Sbjct: 61  TASRQSIDMVLLTKQELWVISVKNFSGILTIGGDGSWVCEKPDKHKAERHPDPVEEARKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           ASI+ESYLEQRGVALPEGY+S KVI+PNPK   I A  FP EVI++DQWM +KPE K ML
Sbjct: 121 ASIVESYLEQRGVALPEGYISCKVILPNPKLCTIPAGSFPSEVITHDQWMQLKPEPKRML 180

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           S W+K AFR GKK+MQES++Q L+F+L +APIWDR+E+KGNKYVLGEFLEFKGKQED++A
Sbjct: 181 SSWVKSAFRSGKKDMQESVNQNLDFVLGSAPIWDRVELKGNKYVLGEFLEFKGKQEDVEA 240

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR I+RSKV R+++QKTSMFGL 
Sbjct: 241 LRPIRRSKVGRMIIQKTSMFGLA 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255638646|gb|ACU19628.1| unknown [Glycine max]

 Score =  386 bits (992), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 179/263 (68%), Positives = 219/263 (83%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+ GLVIYK+ ++ FYDDDVLD+E SDS+A+F VA RL+KLY    YVGLRIPD D
Sbjct: 1   MWLEIIFGLVIYKLFRRFFYDDDVLDIEGSDSSALFFVADRLKKLYGANVYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TK E  VISVKN SG +T+  DGSWVCE   +H++  HPDPV EA+KQ
Sbjct: 61  TASRQSIDMVLLTKQELWVISVKNFSGILTIGGDGSWVCEKPDKHKAERHPDPVEEARKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           ASI+ESYLEQRGVALPEGY+S KVI+PNPK   I A  FP EVI++DQWM +KPE K ML
Sbjct: 121 ASIVESYLEQRGVALPEGYISCKVILPNPKLCTIPAGSFPSEVITHDQWMQLKPEPKRML 180

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           S W+K AFR GKK+MQES++Q L+F+L +APIWDR+E+KGNKYVLGEFLEFKGKQED++A
Sbjct: 181 SSWVKSAFRSGKKDMQESVNQNLDFVLGSAPIWDRVELKGNKYVLGEFLEFKGKQEDVEA 240

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR I+RSKV R+++QKTSMFGL 
Sbjct: 241 LRPIRRSKVGRMIIQKTSMFGLA 263

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15220924|ref|NP_176682.1| uncharacterized protein [Arabidopsis thaliana] gi|53828515|gb|AAU94367.1| At1g65020 [Arabidopsis thaliana] gi|55167914|gb|AAV43789.1| At1g65020 [Arabidopsis thaliana] gi|332196195|gb|AEE34316.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  382 bits (982), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 183/263 (69%), Positives = 214/263 (81%), Gaps = 3/263 (1%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+CGLVIYK+ ++ FYDD+  DVETSDS A+FSVA RLEKLY GKAYVGLRIPD D
Sbjct: 1   MWIEIICGLVIYKLVRRFFYDDEFSDVETSDSTALFSVAHRLEKLYGGKAYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TKG+ VVISVKNLSG VTV +DGSWVCE    H +   PDP+AE KKQ
Sbjct: 61  TASRQDIDVVLVTKGDVVVISVKNLSGIVTVTSDGSWVCEGGKHHTTETFPDPLAEVKKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           AS+LESYLEQRGV L EG +S KV+IPNP FR I+A  FP EVI+Y+ W  +KP +KS +
Sbjct: 121 ASVLESYLEQRGVTLLEGNVSCKVVIPNPSFRTIHA--FPSEVITYEDWQQLKPVSKSKI 178

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           SGW+KGAF  G KEMQES HQ+LNFIL TAP WDR+E+K +K VLGEFLEFKGKQED  A
Sbjct: 179 SGWVKGAFSTG-KEMQESSHQKLNFILGTAPTWDRVELKSSKIVLGEFLEFKGKQEDTLA 237

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR IKRSKV R+ +QKTSMFGL 
Sbjct: 238 LRNIKRSKVDRVSIQKTSMFGLA 260

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297840839|ref|XP_002888301.1| hypothetical protein ARALYDRAFT_475506 [Arabidopsis lyrata subsp. lyrata] gi|297334142|gb|EFH64560.1| hypothetical protein ARALYDRAFT_475506 [Arabidopsis lyrata subsp. lyrata]

 Score =  381 bits (979), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 182/263 (69%), Positives = 214/263 (81%), Gaps = 3/263 (1%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+CGLVIYK+ ++ FYDD+  DVETSDS A+FSVA RLEKLY GKAYVGLRIPD D
Sbjct: 1   MWIEIICGLVIYKLVRRFFYDDEFSDVETSDSTALFSVAHRLEKLYGGKAYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TKGE VVI+VKNLSG VTV +DGSWVCE    H + + PDP+AE KKQ
Sbjct: 61  TASRQDIDVVLVTKGEIVVIAVKNLSGIVTVTSDGSWVCEGGKHHTTESFPDPLAEVKKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           AS+LESYLEQRGV L EG LS KV+IPNP FR I+A  FP EVI+Y+ W  +KP ++S +
Sbjct: 121 ASVLESYLEQRGVTLLEGNLSCKVVIPNPSFRTIHA--FPSEVITYEDWQQLKPASRSKI 178

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           SGW+KGAF  G KEMQES HQ+LNFIL TAP WDR+E+K +K VLGEFLEFKGKQED  A
Sbjct: 179 SGWVKGAFSTG-KEMQESSHQKLNFILGTAPTWDRVELKSSKIVLGEFLEFKGKQEDTLA 237

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           LR IKRSKV  + +QKTSMFGL 
Sbjct: 238 LRNIKRSKVDHVSIQKTSMFGLA 260

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6227000|gb|AAF06036.1|AC009360_1 EST gb|AI998705 comes from this gene, partial [Arabidopsis thaliana]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 183/262 (69%), Positives = 214/262 (81%), Gaps = 3/262 (1%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW++I+CGLVIYK+ ++ FYDD+  DVETSDS A+FSVA RLEKLY GKAYVGLRIPD D
Sbjct: 1   MWIEIICGLVIYKLVRRFFYDDEFSDVETSDSTALFSVAHRLEKLYGGKAYVGLRIPDAD 60

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           T SRQ+ID+VL+TKG+ VVISVKNLSG VTV +DGSWVCE    H +   PDP+AE KKQ
Sbjct: 61  TASRQDIDVVLVTKGDVVVISVKNLSGIVTVTSDGSWVCEGGKHHTTETFPDPLAEVKKQ 120

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
           AS+LESYLEQRGV L EG +S KV+IPNP FR I+A  FP EVI+Y+ W  +KP +KS +
Sbjct: 121 ASVLESYLEQRGVTLLEGNVSCKVVIPNPSFRTIHA--FPSEVITYEDWQQLKPVSKSKI 178

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           SGW+KGAF  G KEMQES HQ+LNFIL TAP WDR+E+K +K VLGEFLEFKGKQED  A
Sbjct: 179 SGWVKGAFSTG-KEMQESSHQKLNFILGTAPTWDRVELKSSKIVLGEFLEFKGKQEDTLA 237

Query: 241 LRYIKRSKVSRLVVQKTSMFGL 262
           LR IKRSKV R+ +QKTSMFGL
Sbjct: 238 LRNIKRSKVDRVSIQKTSMFGL 259

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388508826|gb|AFK42479.1| unknown [Lotus japonicus]

 Score =  380 bits (977), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 177/263 (67%), Positives = 215/263 (81%), Gaps = 1/263 (0%)

Query: 1   MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
           MW  I+CGLVIYK+ ++  YDDD+LD+E SDS+A+FSVA RL+KLY GK +VGLRIPD D
Sbjct: 8   MWAAIICGLVIYKLFRRFMYDDDILDIEGSDSSALFSVADRLKKLYGGKVHVGLRIPDAD 67

Query: 61  TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
           + SRQ IDIVL+TK E  VISVKN SG + V+ DGSWV E  G+H+   HPDPV EA+KQ
Sbjct: 68  SASRQTIDIVLVTKQELAVISVKNFSGILAVHRDGSWVSEKPGKHKQETHPDPVEEARKQ 127

Query: 121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
            SILESYL+QRGV LP+GY+SYKVI+PNPK   + AS FPPEVI+++QW+ +KP +KSM 
Sbjct: 128 VSILESYLKQRGVDLPKGYISYKVILPNPKLCTLPASDFPPEVITHEQWVQLKPGHKSMF 187

Query: 181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
           S W+K AF  GKK+MQE   Q L+F+LSTAPIWDRLE+KG+KYVLGEFLEFKGKQEDI+A
Sbjct: 188 SSWVKSAFGAGKKDMQE-FTQNLDFVLSTAPIWDRLELKGSKYVLGEFLEFKGKQEDIEA 246

Query: 241 LRYIKRSKVSRLVVQKTSMFGLG 263
           L YI+RSKV R+ +QKTSMFGL 
Sbjct: 247 LSYIRRSKVGRVTIQKTSMFGLA 269

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

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	265
TAIR|locus:2014983	319	AT1G65020 "AT1G65020" [Arabido	0.977	0.811	0.698	1.2e-95

TAIR|locus:2014983 AT1G65020 "AT1G65020" [Arabidopsis thaliana (taxid:3702)]

 Score = 951 (339.8 bits), Expect = 1.2e-95, P = 1.2e-95
 Identities = 183/262 (69%), Positives = 214/262 (81%)

Query:     1 MWVQILCGLVIYKICKKLFYDDDVLDVETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD 60
             MW++I+CGLVIYK+ ++ FYDD+  DVETSDS A+FSVA RLEKLY GKAYVGLRIPD D
Sbjct:     1 MWIEIICGLVIYKLVRRFFYDDEFSDVETSDSTALFSVAHRLEKLYGGKAYVGLRIPDAD 60

Query:    61 TGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAAHPDPVAEAKKQ 120
             T SRQ+ID+VL+TKG+ VVISVKNLSG VTV +DGSWVCE    H +   PDP+AE KKQ
Sbjct:    61 TASRQDIDVVLVTKGDVVVISVKNLSGIVTVTSDGSWVCEGGKHHTTETFPDPLAEVKKQ 120

Query:   121 ASILESYLEQRGVALPEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWMLMKPENKSML 180
             AS+LESYLEQRGV L EG +S KV+IPNP FR I+A  FP EVI+Y+ W  +KP +KS +
Sbjct:   121 ASVLESYLEQRGVTLLEGNVSCKVVIPNPSFRTIHA--FPSEVITYEDWQQLKPVSKSKI 178

Query:   181 SGWIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYVLGEFLEFKGKQEDIQA 240
             SGW+KGAF  GK EMQES HQ+LNFIL TAP WDR+E+K +K VLGEFLEFKGKQED  A
Sbjct:   179 SGWVKGAFSTGK-EMQESSHQKLNFILGTAPTWDRVELKSSKIVLGEFLEFKGKQEDTLA 237

Query:   241 LRYIKRSKVSRLVVQKTSMFGL 262
             LR IKRSKV R+ +QKTSMFGL
Sbjct:   238 LRNIKRSKVDRVSIQKTSMFGL 259


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        0.319   0.136   0.403    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      265       265   0.00093  114 3  11 22  0.47    33
                                                     32  0.50    36


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:  1
  No. of states in DFA:  607 (65 KB)
  Total size of DFA:  197 KB (2111 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:  23.70u 0.10s 23.80t   Elapsed:  00:00:01
  Total cpu time:  23.70u 0.10s 23.80t   Elapsed:  00:00:01
  Start:  Fri May 10 14:44:57 2013   End:  Fri May 10 14:44:58 2013

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

---

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	265
pfam08378	107	pfam08378, NERD, Nuclease-related domain	3e-11

>gnl|CDD|219813 pfam08378, NERD, Nuclease-related domain

 Score = 58.8 bits (142), Expect = 3e-11
 Identities = 28/110 (25%), Positives = 45/110 (40%), Gaps = 11/110 (10%)

Query: 38  VAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSW 97
           VA  L KL     YV   +     G    ID ++I+     VI VKN SG++  + DG W
Sbjct: 9   VAKFLGKLLPDNYYV--LLLIDRGGGTAEIDHLVISPKGIFVIEVKNYSGWIFGDEDGKW 66

Query: 98  VCEAVGRHRSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLSYKVIIP 147
                         +P+ + ++ A  L+S L+      P+  +   V+  
Sbjct: 67  TEG---------FKNPLLQNRRHAKALKSLLKALEALGPDKPVEPVVVFS 107

The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing. Length = 107

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	265
PF08378	115	NERD: Nuclease-related domain; InterPro: IPR011528	99.85
PRK14687	173	hypothetical protein; Provisional	94.25
cd00523	123	archeal_HJR Holliday junction resolvases (HJRs) ar	94.06
PRK14688	121	hypothetical protein; Provisional	93.17
PRK14675	125	hypothetical protein; Provisional	93.09
PRK14677	107	hypothetical protein; Provisional	92.64
PRK14674	133	hypothetical protein; Provisional	92.08
PRK14681	158	hypothetical protein; Provisional	91.84
PRK12497	119	hypothetical protein; Reviewed	91.76
PF02021	93	UPF0102: Uncharacterised protein family UPF0102; I	91.31
PRK14684	120	hypothetical protein; Provisional	91.25
PRK14680	134	hypothetical protein; Provisional	90.94
PRK14676	117	hypothetical protein; Provisional	90.92
PRK14685	177	hypothetical protein; Provisional	90.47
TIGR00252	119	conserved hypothetical protein TIGR00252. the scor	90.38
PRK14682	117	hypothetical protein; Provisional	90.23
PRK14679	128	hypothetical protein; Provisional	89.86
PRK14686	119	hypothetical protein; Provisional	89.75
PRK14689	124	hypothetical protein; Provisional	89.73
PRK14683	122	hypothetical protein; Provisional	88.95
PRK14678	120	hypothetical protein; Provisional	87.81
PHA01753	121	Holliday junction resolvase	86.87
COG1591	137	Holliday junction resolvase - archaeal type [DNA r	85.99
PF13635	90	DUF4143: Domain of unknown function (DUF4143)	84.85
COG0792	114	Predicted endonuclease distantly related to archae	84.15
PRK14673	137	hypothetical protein; Provisional	83.56
PF04471	115	Mrr_cat: Restriction endonuclease; InterPro: IPR00	80.03

>PF08378 NERD: Nuclease-related domain; InterPro: IPR011528 The nuclease-related domain (NERD) is found in a broad range of bacterial, as well as single archaeal and plant proteins

Probab=99.85  E-value=1.7e-20  Score=148.39  Aligned_cols=108  Identities=31%  Similarity=0.524  Sum_probs=88.9

Q ss_pred             cchhHHHHHHHH-hcCCC--ceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccceeEEECCCCcEEEEecCCccc
Q 024593           31 DSNAIFSVAARL-EKLYK--GKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRS  107 (265)
Q Consensus        31 ~~~~~~~v~~~L-~~l~~--~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~I~~~~~~~W~q~~~~~~~~  107 (265)
                      +..+|..+.+.| +.+++  +++|+|+++|+ ......|||+|++|++||||||+|||+|.|+++.++.|++. .    .
T Consensus         2 G~~gE~~~~~~L~~~l~~~~~~v~~~i~~~~-~~~~~~eiD~lvi~~~gi~viE~K~~~g~i~~~~~~~w~~~-~----~   75 (115)
T PF08378_consen    2 GAAGEQRVAERLEKHLPDDEYHVFHNIRLPD-PQGGTREIDHLVITPKGIFVIEVKNWSGKIYGDEDGQWFQE-N----K   75 (115)
T ss_pred             cHHHHHHHHHHHHhhCCcCcEEEEeceEEec-cCCCCceeEEEEEeCCEEEEEEEecccceEEEcCCCcEEEc-C----C
Confidence            567899999999 55554  57999999986 34445699999999999999999999999998865589984 2    3


Q ss_pred             ccCCChHHHHHHHHHHHHHHHHH---cCCCCCCCceeEEEEEe
Q 024593          108 AAHPDPVAEAKKQASILESYLEQ---RGVALPEGYLSYKVIIP  147 (265)
Q Consensus       108 ~~~~nPv~Q~~r~~~~L~~~L~~---~g~~lp~~~i~~~VVf~  147 (265)
                      ..++||+.|+++++++|+++|+.   .+...|   |.++||||
T Consensus        76 ~~~~nP~~q~~~~~~~l~~~L~~~~~~~~~~~---v~~vVVf~  115 (115)
T PF08378_consen   76 KEFKNPLEQVRRQAQALKNLLKKRKEKGPNVP---VHPVVVFP  115 (115)
T ss_pred             eecCCHHHHHHHHHHHHHHHhhhhhccCCCce---EEEEEEEC
Confidence            56999999999999999999832   233456   99999996

Most NERD-containing proteins have a single domain, sometimes with additional (predicted) transmembrane helices. In a few instances, proteins containing NERD domains have additional domains (mostly involved in DNA processing), such as the HRDC, the UvrD/REP helicase, the DNA-binding C4 zinc finger, or the serine/threonine and tyrosine protein kinases. In all cases in which a NERD domain is present in multidomain proteins, it is found at the N terminus. The NERD domain is predicted to function in DNA processing, and may have a nuclease function [].

>PRK14687 hypothetical protein; Provisional

Probab=94.25  E-value=1.3  Score=38.09  Aligned_cols=49  Identities=16%  Similarity=0.123  Sum_probs=33.5

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCC----eEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKG----EAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~----gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=+|.|-+ +    ..|||+|....+    .++.||||-
T Consensus        33 Gr~gE~~Aa~~L~~kGy~IL~RN~R~~-r----~GEIDIIA~d~~~~~~~LVFVEVKt   85 (173)
T PRK14687         33 GGGFEQLACEFLQEQGLILIARNWQQP-K----VGELDLVMLEKGQAWSTLVFAEVRQ   85 (173)
T ss_pred             hHHHHHHHHHHHHHCCCEEeeecccCC-C----CccEEEEEecCCCCCCEEEEEEEeE
Confidence            456788888888874333334456532 1    239999987664    899999994

>cd00523 archeal_HJR Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination

Probab=94.06  E-value=0.19  Score=40.88  Aligned_cols=52  Identities=29%  Similarity=0.238  Sum_probs=39.3

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecc
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNL   85 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~   85 (265)
                      .+..+|..+++.|+. .|..++   |.|..+.+...|||+|..-.+.+++||||.-
T Consensus         4 ~G~~~E~~a~~~L~~-~G~~vl---R~~~sG~~~~~eiDIIA~~~~~lvfVEVK~r   55 (123)
T cd00523           4 KGSRAERELVKILEE-KGFAVV---RAPGSGGGPRPLPDIVAGNGGTYLAIEVKST   55 (123)
T ss_pred             hHHHHHHHHHHHHHh-CCCEEE---EEcCCCCCCCCceeEEEecCCEEEEEEEEec
Confidence            356689999999988 455566   6654433334599999999999999999943

HJR's occur in archaea, bacteria, and in the mitochondria of certain eukaryotes, however this CD includes only the archeal HJR's. The bacterial and archeal HJRs perform a similar function but differ in both sequence and structure. Structural similarity does however, exist between the archeal HJRs and type II restriction endonucleases, such as EcoRV, BglII, and Fok, and this similarity includes their active site configurations.

>PRK14688 hypothetical protein; Provisional

Probab=93.17  E-value=1.7  Score=35.25  Aligned_cols=48  Identities=23%  Similarity=0.137  Sum_probs=35.8

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|.--...++.||||-
T Consensus         9 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lVFVEVK~   56 (121)
T PRK14688          9 GEFGEKLAAEYLKGMGYSIIQTNCRLP------EGEIDIVGQDGEYLVFIEVRT   56 (121)
T ss_pred             HHHHHHHHHHHHHHCCCEEEEEEeeCC------CCcEeEEEeeCCEEEEEEEEe
Confidence            566788888999874333344466643      239999999989999999993

>PRK14675 hypothetical protein; Provisional

Probab=93.09  E-value=2.3  Score=34.52  Aligned_cols=83  Identities=14%  Similarity=0.143  Sum_probs=51.4

Q ss_pred             cccchhHHHHHHHHhcCCCceEE-eeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccceeEEECCCCcEEEEecCCccc
Q 024593           29 TSDSNAIFSVAARLEKLYKGKAY-VGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRS  107 (265)
Q Consensus        29 ~~~~~~~~~v~~~L~~l~~~~vl-~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~I~~~~~~~W~q~~~~~~~~  107 (265)
                      .-+..+|...+..|+.. |..|+ .|.+.+      ..|||+|..-...+++||||-.++.-++.+              
T Consensus         9 ~~G~~gE~~A~~~L~~~-G~~il~rn~r~~------~GEIDlIa~d~~~lvFVEVK~R~~~~~g~~--------------   67 (125)
T PRK14675          9 SLGEIGESIAVTYLKGL-RYKIVERNFRCR------CGEIDIIARDGKTLVFVEVKTRKNYAYGVP--------------   67 (125)
T ss_pred             HHhHHHHHHHHHHHHHC-CCEEEEEEEeCC------CCeEEEEEEeCCEEEEEEEEeccCCCCcCh--------------
Confidence            34566788888888874 44444 456543      229999999999999999995544322221              


Q ss_pred             ccCCChHHHHHHHHHHHHHHHHHcCC
Q 024593          108 AAHPDPVAEAKKQASILESYLEQRGV  133 (265)
Q Consensus       108 ~~~~nPv~Q~~r~~~~L~~~L~~~g~  133 (265)
                      ..--+|-.| ++=.++-+.||.+++.
T Consensus        68 ~~aV~~~K~-~ri~~~A~~yL~~~~~   92 (125)
T PRK14675         68 QLAVTPFKQ-RQISKAALTWLAKKKL   92 (125)
T ss_pred             HHcCCHHHH-HHHHHHHHHHHHHCCC
Confidence            111233223 2444555678888764

>PRK14677 hypothetical protein; Provisional

Probab=92.64  E-value=0.41  Score=37.98  Aligned_cols=48  Identities=25%  Similarity=0.042  Sum_probs=35.6

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEee
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVK   83 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVK   83 (265)
                      .+..+|...+..|+......+=.|.|-+.      .|||+|.--...++.||||
T Consensus         2 ~G~~~E~~A~~~L~~~Gy~Il~rN~r~~~------GEIDlIa~~~~~lvFVEVK   49 (107)
T PRK14677          2 DWKEAEELACKFLKKKGYKILERNYRTKY------GEIDIVARDGREIVFVEVK   49 (107)
T ss_pred             ChHHHHHHHHHHHHHCCCEEEEEEecCCC------ceeeEEEEECCEEEEEEEe
Confidence            35678888889998743333444666432      3999999999999999999

>PRK14674 hypothetical protein; Provisional

Probab=92.08  E-value=4.2  Score=33.47  Aligned_cols=48  Identities=15%  Similarity=0.122  Sum_probs=35.9

Q ss_pred             ccchhHHHHHHHHhcCCCceEE-eeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           30 SDSNAIFSVAARLEKLYKGKAY-VGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl-~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      .+..+|...++.|+.. |+.|+ .|.|-+      ..|||+|.--...++.||||-
T Consensus         7 ~G~~gE~~A~~~L~~~-Gy~Il~rN~r~~------~GEIDiIa~~~~~LVFVEVK~   55 (133)
T PRK14674          7 LGQWAEQTALKLLKEQ-NYEWVASNYHSR------RGEVDLIVKRGNELIFVEVKA   55 (133)
T ss_pred             hhHHHHHHHHHHHHHC-CCEEeEEeeecC------CCCEeEEEEeCCEEEEEEEEe
Confidence            3566788888999874 44444 466643      239999998888999999993

>PRK14681 hypothetical protein; Provisional

Probab=91.84  E-value=3.7  Score=34.83  Aligned_cols=48  Identities=21%  Similarity=0.071  Sum_probs=34.5

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeC-CeEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITK-GEAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~-~gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|..-+ +.++.||||-
T Consensus        46 G~~gE~~Aa~~L~~~Gy~IL~rN~R~~------~GEIDIIa~d~~~~LVFVEVKt   94 (158)
T PRK14681         46 GALGEQYAAAWLEEHGWTTLSRNWHCR------YGELDIVALNPEYTIVFVEVKT   94 (158)
T ss_pred             HHHHHHHHHHHHHHCCCEEEEEEEeCC------CCcEEEEEEcCCceEEEEEEEe
Confidence            556788888888774333344467743      23999999876 4899999994

>PRK12497 hypothetical protein; Reviewed

Probab=91.76  E-value=0.41  Score=38.47  Aligned_cols=49  Identities=18%  Similarity=0.099  Sum_probs=36.0

Q ss_pred             cchhHHHHHHHHhcCCCceEE-eeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccc
Q 024593           31 DSNAIFSVAARLEKLYKGKAY-VGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl-~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      +..+|...+..|+.. |..|+ .|.|-+      ..|||+|..-...++.||||-.+
T Consensus         9 G~~gE~~A~~~L~~~-Gy~Il~rN~r~~------~GEIDiIa~~~~~lvFVEVK~R~   58 (119)
T PRK12497          9 GAAGEDLAARYLESK-GLRILARNFRCR------FGEIDLIARDGDTLVFVEVKTRR   58 (119)
T ss_pred             HHHHHHHHHHHHHHC-CCEEEcceecCC------CCcEeeeEEeCCEEEEEEEEecc
Confidence            456788888889864 44444 566653      22999999998899999999433

>PF02021 UPF0102: Uncharacterised protein family UPF0102; InterPro: IPR003509 The proteins in this entry are functionally uncharacterised

Probab=91.31  E-value=0.71  Score=35.49  Aligned_cols=49  Identities=22%  Similarity=0.060  Sum_probs=33.4

Q ss_pred             hHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecccee
Q 024593           34 AIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGF   88 (265)
Q Consensus        34 ~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~   88 (265)
                      +|...+..|+......+=.|.|-+.      .|||+|..-...++.||||-.++.
T Consensus         2 gE~~A~~~L~~~G~~IL~rN~r~~~------GEIDiIa~~~~~lvfVEVK~R~~~   50 (93)
T PF02021_consen    2 GEELAARYLERKGYRILERNWRCRR------GEIDIIARDGDTLVFVEVKTRSSS   50 (93)
T ss_dssp             HHHHHHHHHHHTT-EEEEEEEEETT------EEEEEEEEETTEEEEEEEEE----
T ss_pred             HHHHHHHHHHHCCCEEeeeeecCCC------CcEeEEEEEcccEEEEEEEEeecc
Confidence            4666777888744444556677633      399999999889999999965543

; PDB: 3FOV_A.

>PRK14684 hypothetical protein; Provisional

Probab=91.25  E-value=0.62  Score=37.67  Aligned_cols=48  Identities=21%  Similarity=0.176  Sum_probs=35.7

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|.-....++.||||-
T Consensus         9 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lvFVEVK~   56 (120)
T PRK14684          9 GFNAEKTACRYLQKQGLSFITKNFRYK------QGEIDLIMSDQSMLVFIEVRY   56 (120)
T ss_pred             hHHHHHHHHHHHHHCCCEEEEEEecCC------CCeEEEEEEeCCEEEEEEEeE
Confidence            566788888999874333344466643      239999999988999999993

>PRK14680 hypothetical protein; Provisional

Probab=90.94  E-value=0.59  Score=38.55  Aligned_cols=49  Identities=20%  Similarity=0.092  Sum_probs=35.5

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecc
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNL   85 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~   85 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|......++.||||--
T Consensus         9 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lVFVEVKtR   57 (134)
T PRK14680          9 GQHGEDAAAALLQRTGHRILARNWRHG------GLELDIVCEDGDTIVFVEVKTR   57 (134)
T ss_pred             HHHHHHHHHHHHHHCCCEEEEeecCCC------CCeEEEEEEeCCEEEEEEEEec
Confidence            456788888889874333344466643      2399999998889999999943

>PRK14676 hypothetical protein; Provisional

Probab=90.92  E-value=0.59  Score=37.63  Aligned_cols=47  Identities=23%  Similarity=0.157  Sum_probs=34.8

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEee
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVK   83 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVK   83 (265)
                      +..+|...++.|+......+=.|.|-+      ..|||+|.--...++.||||
T Consensus        10 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lVFVEVK   56 (117)
T PRK14676         10 GQTAEEAVARIYDRSGRPVAARRWRGV------SGEIDLIAREGAEVIFIEVK   56 (117)
T ss_pred             HHHHHHHHHHHHHHCCCEEeeeecCCC------CCeEEEEEeeCCEEEEEEEe
Confidence            456788888899874333344466643      23999999998899999999

>PRK14685 hypothetical protein; Provisional

Probab=90.47  E-value=0.66  Score=40.01  Aligned_cols=47  Identities=15%  Similarity=0.071  Sum_probs=34.1

Q ss_pred             chhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           32 SNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        32 ~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      ..+|...+..|+......+=.|.|-+      ..|||+|.-....++.||||-
T Consensus        46 ~~gE~~Aa~yL~~~Gy~IL~RN~R~~------~GEIDIIA~dg~~LVFVEVKt   92 (177)
T PRK14685         46 QAYESAALRWLARQGLRPLARNLRCR------AGEIDLAMRDGEVLVLVEVRA   92 (177)
T ss_pred             HHHHHHHHHHHHHCCCEEeEeeecCC------CCcEEEEEecCCEEEEEEEeE
Confidence            44688888888874333444466643      229999988888999999994

>TIGR00252 conserved hypothetical protein TIGR00252

Probab=90.38  E-value=0.85  Score=36.82  Aligned_cols=48  Identities=15%  Similarity=0.118  Sum_probs=35.2

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|.--.+.++.||||-
T Consensus         9 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lvFVEVK~   56 (119)
T TIGR00252         9 GQAGESQARAWLEQKGLKFIAANWNSP------WGEIDLIMHDTKTIAFVEVRT   56 (119)
T ss_pred             hHHHHHHHHHHHHHCCCEEeEEEecCC------CCcEEEEEeeCCEEEEEEEEe
Confidence            566788888999874333334466643      229999998888999999994

the scores for Mycobacterium tuberculosis and Treponema pallidum are low considering the alignment

>PRK14682 hypothetical protein; Provisional

Probab=90.23  E-value=0.94  Score=36.44  Aligned_cols=50  Identities=24%  Similarity=0.224  Sum_probs=36.9

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEe-eCCCCCCccceeEEEEeCCeEEEEEeeccc
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRI-PDPDTGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrl-p~~~~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      +..+|...+..|+......+=.|.|- +      ..|||+|..-...++.||||-.+
T Consensus         7 G~~gE~~A~~~L~~~Gy~Il~rN~r~~~------~GEIDiIa~~~~~lvFVEVKtR~   57 (117)
T PRK14682          7 GNKAELQACKFLHTQALEILAHNFKALP------YGEIDIIALDKDTLVFIEVKYRS   57 (117)
T ss_pred             HHHHHHHHHHHHHHCCCEEeeeeEECCC------CCcEEEEEeeCCEEEEEEEEecC
Confidence            55678888999987544444456763 3      22999999988899999999433

>PRK14679 hypothetical protein; Provisional

Probab=89.86  E-value=0.83  Score=37.40  Aligned_cols=47  Identities=13%  Similarity=-0.019  Sum_probs=34.0

Q ss_pred             chhHHHHHHHHhcCCCceE-EeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecc
Q 024593           32 SNAIFSVAARLEKLYKGKA-YVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNL   85 (265)
Q Consensus        32 ~~~~~~v~~~L~~l~~~~v-l~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~   85 (265)
                      ..+|...+..|+.. |+.| =.|.|-+      ..|||+|.--...++.||||--
T Consensus        19 ~~gE~~A~~~L~~~-Gy~Il~rN~r~~------~GEIDiIa~~~~~lVFVEVKtR   66 (128)
T PRK14679         19 LSAEGLALLALMLK-GYRPLARRFAAA------GGEIDLIVRRGRTIAFVEVKAR   66 (128)
T ss_pred             HHHHHHHHHHHHHC-CCEEEeeeccCC------CCeEEEEEEeCCEEEEEEEEec
Confidence            45688888888764 4444 3455532      3399999999889999999943

>PRK14686 hypothetical protein; Provisional

Probab=89.75  E-value=0.8  Score=36.88  Aligned_cols=48  Identities=19%  Similarity=0.078  Sum_probs=35.7

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|.--...++.||||-
T Consensus         8 G~~gE~~A~~~L~~~Gy~il~rN~r~~------~GEIDlIa~~~~~lvFVEVKt   55 (119)
T PRK14686          8 GKEGEDLAVEFLIKKGYTILERNYRFQ------KAEIDIIAQKGNILVIVEVKT   55 (119)
T ss_pred             HHHHHHHHHHHHHHCCCEEEEEEecCC------CCcEEEEECcCCEEEEEEEEe
Confidence            456788888999874333444467642      239999998888999999994

>PRK14689 hypothetical protein; Provisional

Probab=89.73  E-value=0.77  Score=37.41  Aligned_cols=48  Identities=19%  Similarity=0.122  Sum_probs=35.6

Q ss_pred             ccchhHHHHHHHHhcCCCceEE-eeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           30 SDSNAIFSVAARLEKLYKGKAY-VGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl-~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      .+..+|...+..|++. |..|+ .|.|-+      ..|||+|..-...+..||||-
T Consensus        10 ~G~~gE~~Aa~~L~~~-Gy~Il~rN~r~~------~GEIDIIa~~~~~lVFVEVKt   58 (124)
T PRK14689         10 LGAWAEERVLRLLQRR-GWRLLDRNWSCR------WGELDLVLEKQQRLLVVEVKG   58 (124)
T ss_pred             HHHHHHHHHHHHHHHC-CCEEEEEecCCC------CCcccEEeeeCCEEEEEEEEE
Confidence            3566788889999874 44444 466542      239999999888999999994

>PRK14683 hypothetical protein; Provisional

Probab=88.95  E-value=1.1  Score=36.39  Aligned_cols=49  Identities=20%  Similarity=0.084  Sum_probs=35.1

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeec
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKN   84 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn   84 (265)
                      -+..+|...+..|+......+=.|.|-+      ..|||+|.--...++.||||-
T Consensus        15 lG~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDIIa~~~~~lVFVEVKt   63 (122)
T PRK14683         15 LGYLGEVLIILFLKCKLYHIIKHRYRCP------LGEIDIIAHKNKQLVFIEVKT   63 (122)
T ss_pred             HHHHHHHHHHHHHHHCCCEEEeeecCCC------CCcEEEEEEeCCEEEEEEEee
Confidence            3566788888888874333334444432      339999999999999999993

>PRK14678 hypothetical protein; Provisional

Probab=87.81  E-value=1.5  Score=35.51  Aligned_cols=49  Identities=22%  Similarity=0.095  Sum_probs=35.4

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecc
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNL   85 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~   85 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|..-...++.||||--
T Consensus         9 G~~gE~~A~~~L~~~Gy~Il~rN~r~~------~GEIDiIa~~~~~lvFVEVKtR   57 (120)
T PRK14678          9 GDWGEQVAAAYLERCGYTIIARNWRCR------AGEIDIVAREGDQLVFVEVRTR   57 (120)
T ss_pred             HHHHHHHHHHHHHHCCCEEeeeeecCC------CCCEeeeEEeCCEEEEEEEEEC
Confidence            456788888889874333334456542      2399999999899999999943

>PHA01753 Holliday junction resolvase

Probab=86.87  E-value=1.8  Score=35.11  Aligned_cols=53  Identities=28%  Similarity=0.243  Sum_probs=37.4

Q ss_pred             cccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeecc
Q 024593           29 TSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNL   85 (265)
Q Consensus        29 ~~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~   85 (265)
                      ..++.+|...++.|+.. |..++   +-+........|||+|....+-++.||||.-
T Consensus         5 ~~G~~~E~~a~~~L~~~-G~~il---~rn~~~~~~~GEiDIIA~~~~~lvfVEVKtR   57 (121)
T PHA01753          5 QSGKYYEYKTLEILESN-GFKAL---RIPVSGTGKQALPDIIATKNNTIYPIEVKST   57 (121)
T ss_pred             hhhHHHHHHHHHHHHHC-CCEEE---EeccccCCCCCCccEEEeeCCEEEEEEEEeC
Confidence            34778899999999883 43333   3343321124599999999999999999943

>COG1591 Holliday junction resolvase - archaeal type [DNA replication, recombination, and repair]

Probab=85.99  E-value=2.7  Score=34.79  Aligned_cols=76  Identities=21%  Similarity=0.160  Sum_probs=53.9

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccceeEEECCCCcEEEEecCCccccc
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAA  109 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~I~~~~~~~W~q~~~~~~~~~~  109 (265)
                      .++..|..+.+.|...    -|+-+|.|..+.+.+-..|+|-..++-+++||+|.-++                      
T Consensus         5 kG~~~EReLv~~L~e~----GfAvvR~paSG~sk~p~pDivA~~g~~~l~iE~K~~~~----------------------   58 (137)
T COG1591           5 KGSRFERELVRILWER----GFAVVRAPASGGSKRPLPDIVAGNGGVYLAIEVKSRRE----------------------   58 (137)
T ss_pred             ccchHHHHHHHHHHhc----CceEEEcccCCCCCCCCCCEEecCCCEEEEEEEEeccC----------------------
Confidence            4677889999999753    46778999887334447999999999999999994322                      


Q ss_pred             CCChHHHHHHHHHHHHHHHHHcCC
Q 024593          110 HPDPVAEAKKQASILESYLEQRGV  133 (265)
Q Consensus       110 ~~nPv~Q~~r~~~~L~~~L~~~g~  133 (265)
                        +|+--.+.++..|-.+.+..|-
T Consensus        59 --~kiYl~~e~ve~L~~FA~~fGg   80 (137)
T COG1591          59 --TKIYLDKEQVEKLVEFARRFGG   80 (137)
T ss_pred             --CcEEEcHHHHHHHHHHHHHcCC
Confidence              2222233566677777777654

>PF13635 DUF4143: Domain of unknown function (DUF4143)

Probab=84.85  E-value=2.9  Score=31.42  Aligned_cols=49  Identities=27%  Similarity=0.232  Sum_probs=32.7

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEe-eCCCCCCccceeEEEEeCCeEEEEEee
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRI-PDPDTGSRQNIDIVLITKGEAVVISVK   83 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrl-p~~~~~~~~EID~Vivt~~gI~VIEVK   83 (265)
                      .+.-.|..|...|.+.. .. -..+.. .+. .+.  |||+|+-.++.++.||||
T Consensus        39 ~G~l~En~V~~eL~~~~-~~-~~~l~y~r~~-~~~--EVDfv~~~~~~~~~IEVK   88 (90)
T PF13635_consen   39 KGALFENFVAQELLKRL-RE-GYELYYWRDK-SGQ--EVDFVIENGGRIIPIEVK   88 (90)
T ss_pred             HhHHHHHHHHHHHHHhc-CC-CceEEEEECC-CCC--EEEEEEEeCCEEEEEEEE
Confidence            44455888888888763 11 111222 222 223  999999999999999999

>COG0792 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=84.15  E-value=7.9  Score=31.11  Aligned_cols=51  Identities=18%  Similarity=0.018  Sum_probs=33.9

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccce
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSG   87 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG   87 (265)
                      +..+|...+..|++..-..+=.|.|-+      ..|||+|.--.+-|..||||.-++
T Consensus         5 G~~~E~~A~~~L~~~G~~il~rN~r~r------~GEIDlIa~~~~~ivFVEVK~R~~   55 (114)
T COG0792           5 GAAGEDLAARFLESKGLRILARNWRCR------YGEIDLIARDGDTVVFVEVKYRRN   55 (114)
T ss_pred             HHHHHHHHHHHHHHcCcchhhhhccCC------CCceEEEEecCCEEEEEEEEeecc
Confidence            345677777888775333333344432      239999999988888999995443

>PRK14673 hypothetical protein; Provisional

Probab=83.56  E-value=1.3  Score=36.72  Aligned_cols=49  Identities=16%  Similarity=0.096  Sum_probs=34.4

Q ss_pred             cchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCC-eEEEEEeecc
Q 024593           31 DSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKG-EAVVISVKNL   85 (265)
Q Consensus        31 ~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~-gI~VIEVKn~   85 (265)
                      +..+|...+..|+......+=.|.|-+      ..|||+|.--+. .++.||||--
T Consensus        29 G~~gE~~A~~~L~~~Gy~IL~rN~r~~------~GEIDLIa~~~~~~lVFVEVKtR   78 (137)
T PRK14673         29 GAAFEDRALAFLQRAGLALVARNYRCR------GGEIDLVMRERDGTLVFVEVRAR   78 (137)
T ss_pred             HHHHHHHHHHHHHHCCCEEeEeEecCC------CCccCHHHccCCcEEEEEEEEeC
Confidence            456788888889874333334466643      239999987766 8999999943

>PF04471 Mrr_cat: Restriction endonuclease; InterPro: IPR007560 There are four classes of restriction endonucleases: types I, II,III and IV

Probab=80.03  E-value=5.6  Score=30.12  Aligned_cols=52  Identities=23%  Similarity=0.275  Sum_probs=26.4

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCC---eEEEEEeeccce
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKG---EAVVISVKNLSG   87 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~---gI~VIEVKn~sG   87 (265)
                      ++..=+..++..|+.. +   |.+++......  .+.+|+++....   .-++||+|+|.+
T Consensus         5 ~~~~FE~l~~~ll~~~-g---~~~v~~~~~~~--d~giDi~~~~~~~~~~~~~vqcK~~~~   59 (115)
T PF04471_consen    5 SGREFEELVAELLRKL-G---YTDVEVTGGSG--DGGIDIIAEKDDLGKERILVQCKRYKK   59 (115)
T ss_dssp             ---------HHHHHTT-T----EEEEEE-SSS--EEEEEEEEEETT---EEEEEEE---S-
T ss_pred             ccchHHHHHHHHHHHc-C---CccEEEeccCC--CCCEEEEEEEcccCceEEEEEEEEecc
Confidence            3444566777788775 3   22666655433  569999988754   689999998764

All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. This entry represents Mrr, a type IV restriction endonuclease involved in the acceptance of modified foreign DNA, restricting both adenine- and cytosine-methylated DNA. Plasmids carrying HincII, HpaI, and TaqI R and M genes are severely restricted in Escherichia coli strains that are Mrr+ []. Mrr appears to be the final effector of the bacterial SOS response, which is not only a vital reply to DNA damage but also constitutes an essential mechanism for the generation of genetic variability that in turn fuels adaptation and resistance development in bacterial populations []. Mrr possesses a cleavage domain that is similar to that found in type II restriction enzymes, however it has an unusual glutamine residue at the central position of the (D/E)-(D/E)XK hallmark of the active site [].; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0009307 DNA restriction-modification system; PDB: 1Y88_A.

---

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	265
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-06

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.8 bits (110), Expect = 4e-06
 Identities = 35/270 (12%), Positives = 81/270 (30%), Gaps = 67/270 (24%)

Query: 11  IYKICKKLFYDD-DVLDVETSDS-NAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNID 68
           I  + +  F D+ D  DV+  D   +I S    ++ +            D  +G+ +   
Sbjct: 21  ILSVFEDAFVDNFDCKDVQ--DMPKSILS-KEEIDHIIM--------SKDAVSGTLRLFW 69

Query: 69  IVLITKGEAVVISVKNLSGFV--TVNADGSWVCEAVGRHRSAAHPDPVAEAKKQASILES 126
             L++K E +V        FV   +  +  ++   +             E ++ + +   
Sbjct: 70  T-LLSKQEEMV------QKFVEEVLRINYKFLMSPIK-----------TEQRQPSMMTRM 111

Query: 127 YLEQRGVAL--PEGYLSYKVIIPNPKFRVINASYFPPEVISYDQWML---MKPENKSMLS 181
           Y+EQR       + +  Y V    P  ++  A     E+    + +L   +    K+ ++
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALL---ELRP-AKNVLIDGVLGSGKTWVA 167

Query: 182 G-----------------WIKGAFRGGKKEMQESIHQQLNFILSTAPIWDRLEVKGNKYV 224
                             W+           +  +      +    P W       +   
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLN---LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIK 224

Query: 225 LGEFLEFKGKQEDIQALRYIKRSKVSRLVV 254
           L      + +   +   +  +      L+V
Sbjct: 225 L-RIHSIQAELRRLLKSKPYENC----LLV 249

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.0 bits (108), Expect = 7e-06
 Identities = 55/344 (15%), Positives = 101/344 (29%), Gaps = 118/344 (34%)

Query: 2   WV---QILCGLVIYKICKKLFYDDDVLDVETSDSNA-----IFSVAARLEKLYKGKAYV- 52
           W+          + ++ +KL Y  D      SD ++     I S+ A L +L K K Y  
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245

Query: 53  GLRIPDPDTGSRQNID-------IVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRH 105
            L +   +  + +  +       I+L T+ + V   +                  A   H
Sbjct: 246 CLLVLL-NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA----------------ATTTH 288

Query: 106 RSAAHPDPVAEAKKQASILESYLEQRGVALPEGYLS----------------------YK 143
            S  H        +  S+L  YL+ R   LP   L+                      +K
Sbjct: 289 ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 144 VIIPNPKFRVINASY-----------------FPPEV-ISYDQ----WMLMKPE------ 175
            +  +    +I +S                  FPP   I        W  +         
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408

Query: 176 ----NKSMLSGWIKGAFRG---------GKKEMQESIHQQL----NFILSTAPIWDRLEV 218
                 S++    K +             K E + ++H+ +    N I  T    D +  
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN-IPKTFDSDDLIPP 467

Query: 219 KGNKYV---LG----------EFLEFKGKQEDIQALRYIKRSKV 249
             ++Y    +G              F+    D    R++++ K+
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLD---FRFLEQ-KI 507

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	265
1y88_A	199	Hypothetical protein AF1548; APC5567, structural g	93.69
2wcw_A	139	HJC; type II restriction endonuclease, hydrolase,	92.67
1ob8_A	135	Holliday-junction resolvase; hydrolase, enzyme, ho	91.62
3fov_A	134	UPF0102 protein RPA0323; structural genomics, APC7	90.82
1hh1_A	143	Holliday junction resolving enzyme HJC; holliday j	89.41
2eo0_A	147	Hypothetical protein ST1444; holliday junction res	89.3
1gef_A	123	Holliday junction resolvase; HJC, hydrolase; 2.00A	86.52

>1y88_A Hypothetical protein AF1548; APC5567, structural genomics, protein structure INIT PSI, midwest center for structural genomics center, MCSG; 1.85A {Archaeoglobus fulgidus} SCOP: a.60.4.3 c.52.1.30

Probab=93.69  E-value=0.14  Score=43.76  Aligned_cols=56  Identities=21%  Similarity=0.096  Sum_probs=43.7

Q ss_pred             ccccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccc
Q 024593           28 ETSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        28 ~~~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      ..++...|..+++.|+. .|..+..++++....  ..++||+|.-..+.+++||||.|+
T Consensus        14 ~~~g~~fE~~va~~L~~-~Gy~i~~~v~v~~r~--~dggIDIIA~k~~~~v~VEvK~r~   69 (199)
T 1y88_A           14 RENLYFQGHMVARLLEE-HGFETKTNVIVQGNC--VEQEIDVVAERDGERYMIECKFHN   69 (199)
T ss_dssp             --CHHHHHHHHHHHHHT-TTCEEEEEEEEECSS--SEEEEEEEEEETTEEEEEEECCCS
T ss_pred             cCCHHHHHHHHHHHHHH-CCCEEEEeecccCCC--CCCcEEEEEEECCEEEEEEecccc
Confidence            56677889999999998 466677777666653  366999988888899999999877

>2wcw_A HJC; type II restriction endonuclease, hydrolase, DNA binding protein, holliday junction resolvase; 1.58A {Archaeoglobus fulgidus} PDB: 2wcz_A 2wiw_A 2wiz_A 2wj0_A

Probab=92.67  E-value=0.2  Score=40.31  Aligned_cols=53  Identities=17%  Similarity=-0.011  Sum_probs=39.5

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccc
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      .++.+|..+++.|+.. |..|+.   .|..+.....|||+|....+.+++||||.-+
T Consensus         7 ~G~~~E~~a~~~L~~~-Gy~ilR---~~~sg~~~~~eiDIIA~~~~~lv~IEVKtr~   59 (139)
T 2wcw_A            7 KGTRFERDLLVELWKA-GFAAIR---VAGAGVSPFPCPDIVAGNGRTYLAIEVKMRK   59 (139)
T ss_dssp             CHHHHHHHHHHHHHHT-TCEEEE---BTTSSSCSSCCCSEEEECSSCEEEEEEEECS
T ss_pred             hHHHHHHHHHHHHHhC-CcEEEE---ecCCCCCCCCCCCEEEeECCEEEEEEEEECC
Confidence            4677899999999875 555663   3554433345999999998899999999533

>1ob8_A Holliday-junction resolvase; hydrolase, enzyme, homologous recombination, holliday junction resolving enzyme, nuclease, archaea; 1.8A {Sulfolobus solfataricus} SCOP: c.52.1.18 PDB: 1ob9_A

Probab=91.62  E-value=0.33  Score=38.96  Aligned_cols=55  Identities=20%  Similarity=0.125  Sum_probs=37.5

Q ss_pred             cccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccce
Q 024593           29 TSDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSG   87 (265)
Q Consensus        29 ~~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG   87 (265)
                      ..++.+|...++.|+.. |..++   |-+..+.+...|||+|....+.++.||||.-++
T Consensus         4 ~~G~~~E~~A~~~L~~~-G~~il---r~~~~g~~~~gEiDIIA~~g~~lVfVEVKtR~~   58 (135)
T 1ob8_A            4 DIGKNAERELVSILRGE-GFNAV---RIPTSNSSPNPLPDIFATKGNTLLSIECKSTWE   58 (135)
T ss_dssp             --CHHHHHHHHHHHHHT-TCEEE---ECCC-----CCSCSEEEEETTEEEEEEEEEESS
T ss_pred             hHHHHHHHHHHHHHHHC-CCEEE---EEcccCCCCCCCceEEEeECCEEEEEEEEEcCC
Confidence            35677899999999985 55566   333322223449999999999999999995443

>3fov_A UPF0102 protein RPA0323; structural genomics, APC7380, PSI-2, protein structure initi midwest center for structural genomics, MCSG; 1.88A {Rhodopseudomonas palustris}

Probab=90.82  E-value=0.49  Score=37.89  Aligned_cols=80  Identities=18%  Similarity=0.139  Sum_probs=49.7

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccceeEEECCCCcEEEEecCCccccc
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFVTVNADGSWVCEAVGRHRSAA  109 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~I~~~~~~~W~q~~~~~~~~~~  109 (265)
                      .+..+|...+..|+......+=.|.|-+.    +  |||+|..-...++.||||--++  ++.              ...
T Consensus        22 ~G~~gE~~A~~~L~~~Gy~Il~rN~r~~~----G--EIDiIa~~~~~LVFVEVKtR~~--~g~--------------p~e   79 (134)
T 3fov_A           22 TGLSAEASAADYLERQGYRILARRFKTRC----G--EIDLVAQRDALVAFVEVKARGN--VDD--------------AAY   79 (134)
T ss_dssp             ---CHHHHHHHHHHHTTCEEEEEEEEETT----E--EEEEEEEETTEEEEEEEEEC----------------------CC
T ss_pred             HHHHHHHHHHHHHHHCCCEEEeccccCCC----C--cEEEEEEECCEEEEEEEEEccC--CCC--------------HHH
Confidence            34567888999998754445566677532    3  9999999999999999996554  111              122


Q ss_pred             CCChHHHHHHHHHHHHHHHHHcC
Q 024593          110 HPDPVAEAKKQASILESYLEQRG  132 (265)
Q Consensus       110 ~~nPv~Q~~r~~~~L~~~L~~~g  132 (265)
                      --+|-.|. +-.++-..||.+++
T Consensus        80 aV~~~K~~-ri~~aA~~yL~~~~  101 (134)
T 3fov_A           80 AVTPRQQS-RIVAAAEAWLSRHP  101 (134)
T ss_dssp             CCCHHHHH-HHHHHHHHHHHHCG
T ss_pred             hCCHHHHH-HHHHHHHHHHHhCC
Confidence            44555554 33344556888764

>1hh1_A Holliday junction resolving enzyme HJC; holliday junction resolvase, homologous recombination, nuclease domain, archaea; 2.15A {Sulfolobus solfataricus} SCOP: c.52.1.18

Probab=89.41  E-value=0.67  Score=37.44  Aligned_cols=54  Identities=17%  Similarity=0.189  Sum_probs=35.7

Q ss_pred             cccchhHHHHHHHHhcCCCceEEeeeEeeCCC-CCCccceeEEEEeCCeEEEEEeeccc
Q 024593           29 TSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD-TGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        29 ~~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~-~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      ..++.+|..+++.|+.. |..++.   -|..+ .....|||+|....+.++.||||.-+
T Consensus         6 ~~G~~~E~~a~~~L~~~-G~~ilr---~~~sg~~~~~gEiDIIA~~~~~lvfVEVK~R~   60 (143)
T 1hh1_A            6 RKGSAVERNIVSRLRDK-GFAVVR---APASGSKRKDPIPDIIALKNGVIILIEMKSRK   60 (143)
T ss_dssp             ---CHHHHHHHHHHHHT-TCEEEE---CCC-------CCCSEEEEETTEEEEEEECCEE
T ss_pred             HhHHHHHHHHHHHHHHC-CCEEEE---EcCcCCcCCCCCceEEEEECCEEEEEEEEECC
Confidence            35677899999999985 555553   23322 22244999999999999999999544

>2eo0_A Hypothetical protein ST1444; holliday junction resolvase, DNA binding protein, structural genomics, NPPSFA; 2.40A {Sulfolobus tokodaii}

Probab=89.30  E-value=0.73  Score=37.38  Aligned_cols=54  Identities=19%  Similarity=0.209  Sum_probs=36.6

Q ss_pred             cccchhHHHHHHHHhcCCCceEEeeeEeeCCC-CCCccceeEEEEeCCeEEEEEeeccc
Q 024593           29 TSDSNAIFSVAARLEKLYKGKAYVGLRIPDPD-TGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        29 ~~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~-~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      ..++.+|..+++.|+.. |..++.   -+..+ .+...|||+|....+.++.||||.-+
T Consensus         9 ~~G~~~E~~a~~~L~~~-G~~ilr---~~~sgg~~~~gEiDIIA~~~~~lvfVEVK~R~   63 (147)
T 2eo0_A            9 SRGSSVERYIVSRLRDK-GFAVIR---APASGSKRKDHVPDIIALKSGVIILIEVKSRK   63 (147)
T ss_dssp             ---CHHHHHHHHHHHHT-TCEEEC---C-----CCGGGSCSEEEEETTEEEEEEEEECC
T ss_pred             HhHHHHHHHHHHHHHHC-CCEEEE---EcccCCcCCCCCceEEEEeCCEEEEEEEEECC
Confidence            35677899999999985 555653   23322 22345999999999999999999544

>1gef_A Holliday junction resolvase; HJC, hydrolase; 2.00A {Pyrococcus furiosus} SCOP: c.52.1.18 PDB: 1ipi_A

Probab=86.52  E-value=0.61  Score=36.69  Aligned_cols=48  Identities=19%  Similarity=0.070  Sum_probs=36.0

Q ss_pred             ccchhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccc
Q 024593           30 SDSNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLS   86 (265)
Q Consensus        30 ~~~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~s   86 (265)
                      .+..+|..+++.|+.. |..++.|.+-        +|||+|..-.+.++.||||.-+
T Consensus         4 ~G~~~E~~A~~~L~~~-Gy~ilrn~r~--------~EIDIIA~~~~~lvfVEVK~R~   51 (123)
T 1gef_A            4 KGAQAERELIKLLEKH-GFAVVRSAGS--------KKVDLVAGNGKKYLCIEVKVTK   51 (123)
T ss_dssp             HHHHHHHHHHHHHHHT-TCEEEEBGGG--------SSCSEEEECSSCEEEEEEEEES
T ss_pred             hhHHHHHHHHHHHHHC-CCEEEEecCC--------CCceEEEEeCCEEEEEEEEeCC
Confidence            3566889999999885 5555555441        2999999988899999999543

---

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	265
d1y88a2	125	Hypothetical protein AF1548, N-terminal domain {Ar	94.4
d1ob8a_	124	Holliday-junction resolvase SSO1176 {Sulfolobus so	89.92
d1hh1a_	132	Archaeal Holliday junction resolvase Hjc {Archaeon	81.71

>d1y88a2 c.52.1.30 (A:3-127) Hypothetical protein AF1548, N-terminal domain {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: MRR-like
domain: Hypothetical protein AF1548, N-terminal domain
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=94.40  E-value=0.056  Score=40.39  Aligned_cols=52  Identities=25%  Similarity=0.129  Sum_probs=41.2

Q ss_pred             HHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccceeE
Q 024593           35 IFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSGFV   89 (265)
Q Consensus        35 ~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG~I   89 (265)
                      +.-|+..|+. .|+.+-.++++.....  +++||++..-++..++||+|+|+..+
T Consensus         6 ~~lva~ll~~-~Gy~v~~~v~v~g~~~--d~gvDiia~~~~~~~~VQcK~~~~~~   57 (125)
T d1y88a2           6 GHMVARLLEE-HGFETKTNVIVQGNCV--EQEIDVVAERDGERYMIECKFHNIPV   57 (125)
T ss_dssp             HHHHHHHHHT-TTCEEEEEEEEECSSS--EEEEEEEEEETTEEEEEEECCCSSSC
T ss_pred             HHHHHHHHHH-cCCceeccEEEeeccc--cceEEEEEEcCCcEEEEEEEEeccCC
Confidence            3557777876 5677888899877644  67999999888899999999887543

>d1ob8a_ c.52.1.18 (A:) Holliday-junction resolvase SSO1176 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: Hjc-like
domain: Holliday-junction resolvase SSO1176
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=89.92  E-value=0.44  Score=35.80  Aligned_cols=73  Identities=21%  Similarity=0.204  Sum_probs=48.1

Q ss_pred             chhHHHHHHHHhcCCCceEEeeeEeeCCCCCCccceeEEEEeCCeEEEEEeeccce-eEEECCCCcEEEEecCCcccccC
Q 024593           32 SNAIFSVAARLEKLYKGKAYVGLRIPDPDTGSRQNIDIVLITKGEAVVISVKNLSG-FVTVNADGSWVCEAVGRHRSAAH  110 (265)
Q Consensus        32 ~~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~~~EID~Vivt~~gI~VIEVKn~sG-~I~~~~~~~W~q~~~~~~~~~~~  110 (265)
                      +..|..+.+.|... +   |.-+|.|..+++.+.=+|+|.+..+.+|+||||.-++ .|+..                  
T Consensus         2 ~~~ERelv~~l~~~-g---f~vvR~~gSGs~~~~~pDllA~~~~~~~~IEvKst~~~kiyi~------------------   59 (124)
T d1ob8a_           2 KNAERELVSILRGE-G---FNAVRIPTSNSSPNPLPDIFATKGNTLLSIECKSTWENKVKVK------------------   59 (124)
T ss_dssp             HHHHHHHHHHHHHT-T---CEEEECCC-----CCSCSEEEEETTEEEEEEEEEESSSEEEEC------------------
T ss_pred             chHHHHHHHHHHhC-C---ceEEEeccCCCCCCCCCCEEEeCCCeEEEEEEEeccCCeEEEC------------------
Confidence            45788888888873 4   4555999886655445899999999999999993221 12211                  


Q ss_pred             CChHHHHHHHHHHHHHHHHHcCC
Q 024593          111 PDPVAEAKKQASILESYLEQRGV  133 (265)
Q Consensus       111 ~nPv~Q~~r~~~~L~~~L~~~g~  133 (265)
                             .+++..|.++.+.-|.
T Consensus        60 -------~eqie~L~~f~~~fga   75 (124)
T d1ob8a_          60 -------EHQVRKLLDFLSMFTM   75 (124)
T ss_dssp             -------HHHHHHHHHHHHTSSS
T ss_pred             -------HHHHHHHHHHHHHcCC
Confidence                   2677788888887554

>d1hh1a_ c.52.1.18 (A:) Archaeal Holliday junction resolvase Hjc {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: Hjc-like
domain: Archaeal Holliday junction resolvase Hjc
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=81.71  E-value=1.6  Score=32.87  Aligned_cols=72  Identities=18%  Similarity=0.287  Sum_probs=47.9

Q ss_pred             hhHHHHHHHHhcCCCceEEeeeEeeCCCCCC-ccceeEEEEeCCeEEEEEeeccce---eEEECCCCcEEEEecCCcccc
Q 024593           33 NAIFSVAARLEKLYKGKAYVGLRIPDPDTGS-RQNIDIVLITKGEAVVISVKNLSG---FVTVNADGSWVCEAVGRHRSA  108 (265)
Q Consensus        33 ~~~~~v~~~L~~l~~~~vl~~lrlp~~~~~~-~~EID~Vivt~~gI~VIEVKn~sG---~I~~~~~~~W~q~~~~~~~~~  108 (265)
                      .+|..+.+.|... +   |.=+|.|..++.. ..-+|+|..-.+.+++||||.-+|   .|+.+                
T Consensus         2 ~~ERel~~~l~~~-g---FavvRapgSGs~~~~~~pDlvA~~~~~~~~IEvKst~~~~~~iyi~----------------   61 (132)
T d1hh1a_           2 AVERNIVSRLRDK-G---FAVVRAPASGSKRKDPIPDIIALKNGVIILIEMKSRKDIEGKIYVR----------------   61 (132)
T ss_dssp             HHHHHHHHHHHHT-T---CEEEECCC-------CCCSEEEEETTEEEEEEECCEECTTSCEEEC----------------
T ss_pred             HHHHHHHHHHHhC-C---ceEEEeccCCCCCCCCCCcEEeccCCEEEEEEEEeecCCcccEEEC----------------
Confidence            4678888888663 2   5566999876532 224899999999999999995432   23333                


Q ss_pred             cCCChHHHHHHHHHHHHHHHHHcCC
Q 024593          109 AHPDPVAEAKKQASILESYLEQRGV  133 (265)
Q Consensus       109 ~~~nPv~Q~~r~~~~L~~~L~~~g~  133 (265)
                               ..|+..|..+.++.|.
T Consensus        62 ---------~eqve~L~~f~~~fG~   77 (132)
T d1hh1a_          62 ---------REQAEGIIEFARKSGG   77 (132)
T ss_dssp             ---------HHHHHHHHHHHHHHTC
T ss_pred             ---------HHHHHHHHHHHHHcCC
Confidence                     1577788888887764