Citrus Sinensis ID: 047362

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MFNNLSRKFPAVKNRNPNPSKLSSSSSSPTPIRSQSQSKRTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEccccccEEEEEEccHHHHHHHHcccccccccccccccccEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
cccHccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEccccccEEEEcccccHHHHHHcccccccccccccccccEEEEEEEEccccccc
Coil and Loop (DISEMBL)
mfnnlsrkfpavknrnpnpsklssssssptpirsqsqskrtpnsnsrsWSVYLIIstnppiktyvgtttnfprrlkqhngelrggakasqagrpwisaCIIQGFHDQSD
Flexible Loop (DISEMBL)
mfnnlsrkfpavknrnpnpsklssssssptpirsqsqskrtpnsnsrsWSVYLIIStnppiktyvGTTTNFPRRLKQHNGELRGgakasqagrpwISACIIQGFHDQSD
Low Complexity Region (SEG)
MFNNLSRKFPAVKNRNpnpsklssssssptpirsqsqsKRTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD
Disordered region (IsUnstruct)
************************************************WSVYLIISTNPPIKTYVGTTTNFPR******************GRPWISACIIQGF*****
Disordered Region (DISOPRED)
************************************************WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHD***
Disordered Region (DISEMBL)
MFNNLSRKFPAVKNR*******************************RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG***********GRPWISACIIQGFHDQSD
Disordered Region (DISPRO)
*********************************************SRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFH****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFNNLSRKFPAVKNRNPNPSKLSSSSSSPTPIRSQSQSKRTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD
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

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	109	2.2.26 [Sep-21-2011]
B6JY16	273	Structure-specific endonu	N/A	no	0.513	0.205	0.421	1e-08
Q9P7M3	271	Structure-specific endonu	yes	no	0.513	0.206	0.448	3e-08
Q4PDF6	658	Structure-specific endonu	N/A	no	0.513	0.085	0.428	1e-07
A6RYJ8	425	Structure-specific endonu	N/A	no	0.513	0.131	0.482	2e-07
A4I1H7	705	Structure-specific endonu	yes	no	0.568	0.087	0.461	3e-07
Q6C0W7	288	Structure-specific endonu	yes	no	0.513	0.194	0.457	8e-07
A1C4Z4	434	Structure-specific endonu	N/A	no	0.513	0.129	0.431	1e-06
Q5CT62	410	Structure-specific endonu	yes	no	0.587	0.156	0.375	1e-06
A8PV03	333	Structure-specific endonu	N/A	no	0.779	0.255	0.357	2e-06
A8PWH1	443	Structure-specific endonu	N/A	no	0.559	0.137	0.384	2e-06

>sp|B6JY16|SLX1_SCHJY Structure-specific endonuclease subunit slx1 OS=Schizosaccharomyces japonicus (strain yFS275 / FY16936) GN=slx1 PE=3 SV=1

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 37/57 (64%), Gaps = 1/57 (1%)

Query: 49  WSVYLIISTNPPIK-TYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
           +  YL++S     +  Y+G+T +  RRL+QHNGE++GGA  ++  RPW  AC + GF
Sbjct: 3   YCCYLLVSEKAASRSVYIGSTPDPARRLRQHNGEIKGGAYKTKRSRPWKVACFVHGF 59

Catalytic subunit of the slx1-slx4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.
Schizosaccharomyces japonicus (strain yFS275 / FY16936) (taxid: 402676)
EC: 3EC: .EC: 6EC: .EC: 1EC: .EC: -

>sp|Q9P7M3|SLX1_SCHPO Structure-specific endonuclease subunit slx1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=slx1 PE=1 SV=1

 Score = 57.4 bits (137), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/58 (44%), Positives = 38/58 (65%), Gaps = 2/58 (3%)

Query: 49  WSVYLIIS--TNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
           +  YL+ S  T      Y+G+T + PRRL+QHNGE+ GGA  ++ GRPW  +C++ GF
Sbjct: 7   YCCYLLKSNRTQSSGAVYIGSTPDPPRRLRQHNGEIVGGASKTKHGRPWSISCLVYGF 64

Catalytic subunit of the slx1-slx4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for stem-loop (SL) and splayed arm Y structures. Introduces a single-strand cut in duplex DNA on the 3' side of a double-strand/single-strand junction with respect to the single-strand moving 3' to 5' away from the junction. Plays a critical role in maintaining the integrity of the ribosomal DNA (rDNA) loci, where it has a role in re-starting stalled replication forks. The complex initiates homologous recombination (HR) events, used to maintain rDNA copy number, in the rDNA repeats that are processed by a mechanism that requires rad22, but not rhp51. It is also required for suppression of methyl methanesulfonate (MMS) and UV-C irradiation hypersensitivity of the structural maintenance of chromosome (SMC) protein mutant, smc6-74, by overexpression of brc1. Has Holliday junction resolvase activity in vitro.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|Q4PDF6|SLX1_USTMA Structure-specific endonuclease subunit SLX1 OS=Ustilago maydis (strain 521 / FGSC 9021) GN=SLX1 PE=3 SV=1

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 24/56 (42%), Positives = 33/56 (58%)

Query: 49  WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
           ++ Y + S + P  TY+G+T   PRR +QHNG L  GA  +   RPW   CI+ GF
Sbjct: 14  YACYFLRSLSTPGTTYIGSTPAPPRRKRQHNGHLTQGAYKTSRARPWEMECIVYGF 69

Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Ustilago maydis (strain 521 / FGSC 9021) (taxid: 237631)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|A6RYJ8|SLX1_BOTFB Structure-specific endonuclease subunit slx1 OS=Botryotinia fuckeliana (strain B05.10) GN=slx1 PE=3 SV=2

 Score = 54.7 bits (130), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 28/58 (48%), Positives = 36/58 (62%), Gaps = 2/58 (3%)

Query: 49  WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAG--RPWISACIIQGF 104
           +  YL+ ST      YVG+T N  RRL+QHNG ++GGA  +  G  RPW  ACI+ GF
Sbjct: 16  YGCYLLRSTIRHSALYVGSTPNPVRRLRQHNGLVKGGAVRTSRGNLRPWEMACIVTGF 73

Catalytic subunit of the slx1-slx4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Botryotinia fuckeliana (strain B05.10) (taxid: 332648)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|A4I1H7|SLX1_LEIIN Structure-specific endonuclease subunit SLX1 homolog OS=Leishmania infantum GN=LinJ25.1380 PE=3 SV=1

 Score = 53.9 bits (128), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 30/65 (46%), Positives = 40/65 (61%), Gaps = 3/65 (4%)

Query: 45  NSRSWSVYLIISTNPPIKT--YVGTTTNFPRRLKQHNGELRGGA-KASQAGRPWISACII 101
           ++R   VYL+ S +P  +   Y+G T N  RRL+QHNGEL  GA + S+ GRPW   C +
Sbjct: 2   DTRFHCVYLLTSLDPQCEGDFYIGYTVNPLRRLRQHNGELVNGARRTSRRGRPWTIVCCV 61

Query: 102 QGFHD 106
            GF D
Sbjct: 62  SGFPD 66

Catalytic subunit of a heterodimeric structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Leishmania infantum (taxid: 5671)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|Q6C0W7|SLX1_YARLI Structure-specific endonuclease subunit SLX1 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=SLX1 PE=3 SV=1

 Score = 52.4 bits (124), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 38/59 (64%), Gaps = 3/59 (5%)

Query: 49  WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELR-GGAKASQAG--RPWISACIIQGF 104
           + VYL+ ST  P+  YVG+T N  RR++QHNG+L+ GGA  ++    RPW    I+ GF
Sbjct: 9   YGVYLLQSTKKPLSCYVGSTPNPFRRIRQHNGDLKAGGAWRTKRAHLRPWSMVLIVNGF 67

Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|A1C4Z4|SLX1_ASPCL Structure-specific endonuclease subunit slx1 OS=Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) GN=slx1 PE=3 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 25/58 (43%), Positives = 36/58 (62%), Gaps = 2/58 (3%)

Query: 49  WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAK--ASQAGRPWISACIIQGF 104
           +  YL+ ST      Y+G+T N  RRL QHNG ++GGA+  A++  RPW    I++GF
Sbjct: 16  YCCYLLRSTVRHASLYIGSTPNPARRLTQHNGVVKGGARRTAAEKLRPWEMVMIVEGF 73

Catalytic subunit of the slx1-slx4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) (taxid: 344612)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|Q5CT62|SLX1_CRYPI Structure-specific endonuclease subunit SLX1 homolog OS=Cryptosporidium parvum (strain Iowa II) GN=cgd2_4280 PE=3 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 24/64 (37%), Positives = 38/64 (59%)

Query: 44  SNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQG 103
           SN +    Y ++S      +Y+G + N  RRL+QHNGE++ GAK +++G PW     + G
Sbjct: 3   SNIQLHYCYFLLSEAKKKASYIGYSVNPCRRLRQHNGEIKKGAKKTKSGVPWNLGICVGG 62

Query: 104 FHDQ 107
           F D+
Sbjct: 63  FPDR 66

Catalytic subunit of a heterodimeric structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Cryptosporidium parvum (strain Iowa II) (taxid: 353152)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|A8PV03|SLX1_BRUMA Structure-specific endonuclease subunit SLX1 homolog OS=Brugia malayi GN=Bm1_35165 PE=3 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 34/95 (35%), Positives = 48/95 (50%), Gaps = 10/95 (10%)

Query: 20  SKLSSSSSSPTPIRSQSQSKR-----TPNSNSRSWSVYLIISTNP----PIKTYVGTTTN 70
           SK+   SSS   I+   + KR      P+     + VY ++S +P      + Y+G T N
Sbjct: 36  SKILCRSSSQEVIQENERKKRGKNYAVPSILDDFFGVYCLLSRSPNRYFKNRCYIGYTVN 95

Query: 71  FPRRLKQHN-GELRGGAKASQAGRPWISACIIQGF 104
             RR++QHN G+  GGAK +    PW   CII GF
Sbjct: 96  PNRRIRQHNAGKEFGGAKKTDHRGPWDMVCIIHGF 130

Catalytic subunit of a heterodimeric structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Brugia malayi (taxid: 6279)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

>sp|A8PWH1|SLX1_MALGO Structure-specific endonuclease subunit SLX1 OS=Malassezia globosa (strain ATCC MYA-4612 / CBS 7966) GN=SLX1 PE=3 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 39/65 (60%), Gaps = 4/65 (6%)

Query: 40  RTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISAC 99
           RTP    R +  Y + S + P +TY+G+T +  RRL+QHNG ++ GA  ++  RPW    
Sbjct: 10  RTP----RVYVCYCLRSLSRPNQTYIGSTPDPIRRLRQHNGLVKQGAFYTRMARPWTMDV 65

Query: 100 IIQGF 104
           ++ GF
Sbjct: 66  VVYGF 70

Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA.

Malassezia globosa (strain ATCC MYA-4612 / CBS 7966) (taxid: 425265)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: -

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	109
356529850	172	PREDICTED: structure-specific endonuclea	0.963	0.610	0.619	2e-26
297795115	154	hypothetical protein ARALYDRAFT_494683 [	0.926	0.655	0.598	1e-25
15239808	170	endo/excinuclease amino terminal domain-	0.917	0.588	0.584	3e-25
225449967	160	PREDICTED: structure-specific endonuclea	0.871	0.593	0.571	5e-24
224055063	177	predicted protein [Populus trichocarpa]	0.541	0.333	0.813	5e-23
224054920	178	predicted protein [Populus trichocarpa]	0.541	0.331	0.813	6e-23
147844250	1697	hypothetical protein VITISV_009093 [Viti	0.559	0.035	0.786	2e-22
224054938	178	predicted protein [Populus trichocarpa]	0.541	0.331	0.796	2e-22
449467603	170	PREDICTED: structure-specific endonuclea	0.642	0.411	0.671	4e-22
449527458	106	PREDICTED: structure-specific endonuclea	0.642	0.660	0.671	1e-21

>gi|356529850|ref|XP_003533500.1| PREDICTED: structure-specific endonuclease subunit slx1-like [Glycine max]

 Score =  123 bits (308), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 65/105 (61%), Positives = 78/105 (74%)

Query: 5   LSRKFPAVKNRNPNPSKLSSSSSSPTPIRSQSQSKRTPNSNSRSWSVYLIISTNPPIKTY 64
           LS +F ++K  N NP    SSS + + I+  ++ K    S S SWSVYLI+STN PIKTY
Sbjct: 4   LSTQFRSIKRPNSNPKLSKSSSPTKSEIKFNAKPKPKSESESESWSVYLILSTNHPIKTY 63

Query: 65  VGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VG T NFPRRLKQHNGEL+GGAKAS+AGRPWI ACII GF D+S+
Sbjct: 64  VGITNNFPRRLKQHNGELKGGAKASRAGRPWICACIICGFTDRSE 108

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297795115|ref|XP_002865442.1| hypothetical protein ARALYDRAFT_494683 [Arabidopsis lyrata subsp. lyrata] gi|297311277|gb|EFH41701.1| hypothetical protein ARALYDRAFT_494683 [Arabidopsis lyrata subsp. lyrata]

 Score =  120 bits (300), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 64/107 (59%), Positives = 74/107 (69%), Gaps = 6/107 (5%)

Query: 1   MFNNLSRKFPAVKNRNPNPSKLSSSSSSPTPIRSQSQSKRTPNSN---SRSWSVYLIIST 57
           M   LSR FP+VK R+    K   +S +  PI S S  +   NS    S+SWSVYLI+ST
Sbjct: 1   MTRLLSRTFPSVKLRDFKTLK---NSQTQVPISSSSSQQSQENSKIPKSKSWSVYLILST 57

Query: 58  NPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
             PIKTYVG TT+F RRLKQHNGE+RGGAKAS AGRPW+ ACII GF
Sbjct: 58  TEPIKTYVGITTDFARRLKQHNGEIRGGAKASSAGRPWLCACIITGF 104

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239808|ref|NP_199135.1| endo/excinuclease amino terminal domain-containing protein [Arabidopsis thaliana] gi|10177383|dbj|BAB10584.1| unnamed protein product [Arabidopsis thaliana] gi|332007541|gb|AED94924.1| endo/excinuclease amino terminal domain-containing protein [Arabidopsis thaliana]

 Score =  119 bits (297), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 66/113 (58%), Positives = 76/113 (67%), Gaps = 13/113 (11%)

Query: 1   MFNNLSRKFPAVKNRNPNPS----KLSSSSSSPTPIRSQSQSKRTPNSNSR-----SWSV 51
           M   LSR FP+VK R+ NP     K   +S +  PI S S    +P  NS+     SWSV
Sbjct: 1   MTRLLSRTFPSVKLRDSNPKAPEFKNLKNSQTQVPIPSSS----SPQENSKIPKSKSWSV 56

Query: 52  YLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
           YLI+ST  PIKTYVG TT+F RRLKQHNGE+RGGAKAS AGRPW+ ACII GF
Sbjct: 57  YLILSTTEPIKTYVGITTDFSRRLKQHNGEIRGGAKASSAGRPWLCACIITGF 109

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449967|ref|XP_002271242.1| PREDICTED: structure-specific endonuclease subunit slx1 [Vitis vinifera] gi|296085104|emb|CBI28599.3| unnamed protein product [Vitis vinifera]

 Score =  114 bits (286), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 60/105 (57%), Positives = 75/105 (71%), Gaps = 10/105 (9%)

Query: 5   LSRKFPAVKNRNPNPSKLSSSSSSPTPIRSQSQSKRTPNSNSRSWSVYLIISTNPPIKTY 64
           +S+ F ++K  NPNP+          P  S+S    + + +S SW VYLI+STN PIKTY
Sbjct: 4   ISKIFRSIKCSNPNPN----------PDPSKSSPSSSRSRSSFSWLVYLILSTNTPIKTY 53

Query: 65  VGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VG TTNF RRLKQHNGEL+GGAKAS+ GRPW+ ACIIQGF D+S+
Sbjct: 54  VGVTTNFSRRLKQHNGELKGGAKASRTGRPWVCACIIQGFKDKSE 98

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055063|ref|XP_002298410.1| predicted protein [Populus trichocarpa] gi|222845668|gb|EEE83215.1| predicted protein [Populus trichocarpa]

 Score =  111 bits (278), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 48/59 (81%), Positives = 55/59 (93%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VYLI+STN PIKTYVG TTNF RRLKQHNGEL+GGAKAS+AGRPWI ACII+GF+D+S+
Sbjct: 55  VYLILSTNRPIKTYVGVTTNFSRRLKQHNGELKGGAKASRAGRPWICACIIRGFNDRSE 113

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054920|ref|XP_002298387.1| predicted protein [Populus trichocarpa] gi|222845645|gb|EEE83192.1| predicted protein [Populus trichocarpa]

 Score =  111 bits (277), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 48/59 (81%), Positives = 55/59 (93%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VYLI+STN PIKTYVG TTNF RRLKQHNGEL+GGAKAS+AGRPWI ACII+GF+D+S+
Sbjct: 56  VYLILSTNHPIKTYVGVTTNFSRRLKQHNGELKGGAKASRAGRPWICACIIRGFNDRSE 114

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147844250|emb|CAN82122.1| hypothetical protein VITISV_009093 [Vitis vinifera]

 Score =  109 bits (273), Expect = 2e-22,   Method: Composition-based stats.
 Identities = 48/61 (78%), Positives = 54/61 (88%)

Query: 49   WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQS 108
            W VYLI+STN PIKTYVG TTNF RRLKQHNGEL+GGAKAS+ GRPW+ ACIIQGF D+S
Sbjct: 1176 WLVYLILSTNTPIKTYVGVTTNFSRRLKQHNGELKGGAKASRTGRPWVCACIIQGFXDKS 1235

Query: 109  D 109
            +
Sbjct: 1236 E 1236

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054938|ref|XP_002298390.1| predicted protein [Populus trichocarpa] gi|222845648|gb|EEE83195.1| predicted protein [Populus trichocarpa]

 Score =  109 bits (272), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 47/59 (79%), Positives = 55/59 (93%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VYLI+STN PIKTYVG TTNF RRLKQHNG+L+GGAKAS+AGRPWI ACII+GF+D+S+
Sbjct: 56  VYLILSTNHPIKTYVGVTTNFSRRLKQHNGKLKGGAKASRAGRPWICACIIRGFNDRSE 114

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449467603|ref|XP_004151512.1| PREDICTED: structure-specific endonuclease subunit SLX1-like [Cucumis sativus]

 Score =  108 bits (270), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 47/70 (67%), Positives = 54/70 (77%)

Query: 39  KRTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISA 98
           K  P    + W VYLIIS+N PIKTYVG T +F RRLKQHNGE++GGAKA++AGRPWI A
Sbjct: 36  KSEPKPKLKQWCVYLIISSNSPIKTYVGVTLDFDRRLKQHNGEIKGGAKATRAGRPWICA 95

Query: 99  CIIQGFHDQS 108
           C I GF DQS
Sbjct: 96  CTIHGFKDQS 105

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449527458|ref|XP_004170728.1| PREDICTED: structure-specific endonuclease subunit slx1-like, partial [Cucumis sativus]

 Score =  106 bits (265), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 47/70 (67%), Positives = 54/70 (77%)

Query: 39  KRTPNSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISA 98
           K  P    + W VYLIIS+N PIKTYVG T +F RRLKQHNGE++GGAKA++AGRPWI A
Sbjct: 36  KSEPKPKLKQWCVYLIISSNSPIKTYVGVTLDFDRRLKQHNGEIKGGAKATRAGRPWICA 95

Query: 99  CIIQGFHDQS 108
           C I GF DQS
Sbjct: 96  CTIHGFKDQS 105

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	109
TAIR|locus:2169273	170	AT5G43210 [Arabidopsis thalian	0.917	0.588	0.542	1.4e-23
POMBASE|SPAP27G11.15	271	slx1 "structure-specific endon	0.486	0.195	0.472	5.7e-09
CGD|CAL0003774	286	orf19.972 [Candida albicans (t	0.513	0.195	0.423	6.7e-07
TAIR|locus:2065775	368	AT2G30350 [Arabidopsis thalian	0.513	0.152	0.431	1.1e-06
SGD|S000000432	304	SLX1 "Endonuclease involved in	0.486	0.174	0.482	5.8e-06
UNIPROTKB|Q9BQ83	275	SLX1A "Structure-specific endo	0.532	0.210	0.393	6.1e-06
MGI|MGI:1915220	270	Slx1b "SLX1 structure-specific	0.532	0.214	0.426	7.6e-06
RGD|1311568	271	Slx1b "SLX1 structure-specific	0.532	0.214	0.409	1.3e-05
UNIPROTKB|Q32PI0	267	SLX1A "Structure-specific endo	0.513	0.209	0.406	2.7e-05
WB|WBGene00018909	443	slx-1 [Caenorhabditis elegans	0.513	0.126	0.393	3.9e-05

TAIR|locus:2169273 AT5G43210 [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 57/105 (54%), Positives = 65/105 (61%)

Query:     5 LSRKFPAVKNRNXXXXXXXXXXXXXXXXXXXXXXKRTPNSNSR-----SWSVYLIISTNP 59
             LSR FP+VK R+                        +P  NS+     SWSVYLI+ST  
Sbjct:     5 LSRTFPSVKLRDSNPKAPEFKNLKNSQTQVPIPSSSSPQENSKIPKSKSWSVYLILSTTE 64

Query:    60 PIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
             PIKTYVG TT+F RRLKQHNGE+RGGAKAS AGRPW+ ACII GF
Sbjct:    65 PIKTYVGITTDFSRRLKQHNGEIRGGAKASSAGRPWLCACIITGF 109

GO:0004518 "nuclease activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006281 "DNA repair" evidence=IEA;ISS

POMBASE|SPAP27G11.15 slx1 "structure-specific endonuclease catalytic subunit" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 137 (53.3 bits), Expect = 5.7e-09, P = 5.7e-09
 Identities = 26/55 (47%), Positives = 37/55 (67%)

Query:    52 YLIIS--TNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
             YL+ S  T      Y+G+T + PRRL+QHNGE+ GGA  ++ GRPW  +C++ GF
Sbjct:    10 YLLKSNRTQSSGAVYIGSTPDPPRRLRQHNGEIVGGASKTKHGRPWSISCLVYGF 64

GO:0000724 "double-strand break repair via homologous recombination" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0016894 "endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters" evidence=IDA

GO:0030874 "nucleolar chromatin" evidence=IDA

GO:0030875 "rDNA protrusion" evidence=NAS

GO:0033557 "Slx1-Slx4 complex" evidence=IDA

GO:0034065 "replication fork processing at rDNA locus" evidence=TAS

GO:0043007 "maintenance of rDNA" evidence=IMP

GO:0045458 "recombination within rDNA repeats" evidence=IDA

GO:0046872 "metal ion binding" evidence=IEA

CGD|CAL0003774 orf19.972 [Candida albicans (taxid:5476)]

 Score = 119 (46.9 bits), Expect = 6.7e-07, P = 6.7e-07
 Identities = 25/59 (42%), Positives = 38/59 (64%)

Query:    49 WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELR-GGA-KASQAG-RPWISACIIQGF 104
             + VY++ S   P  TY+G+T +  RRL+QHNG+L+ GGA +  + G RPW    ++ GF
Sbjct:    17 YGVYILKSIPKPRSTYIGSTPDPKRRLRQHNGDLKVGGAYRTKKDGSRPWNMVVLVYGF 75

GO:0033557 "Slx1-Slx4 complex" evidence=IEA

GO:0006261 "DNA-dependent DNA replication" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IEA

TAIR|locus:2065775 AT2G30350 [Arabidopsis thaliana (taxid:3702)]

 Score = 119 (46.9 bits), Expect = 1.1e-06, P = 1.1e-06
 Identities = 25/58 (43%), Positives = 35/58 (60%)

Query:    49 WSVYLIISTNPPIK--TYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGF 104
             ++ YL+ S +P  K  TY+G T N  RR++QHNGE+  GA  ++  RPW     I GF
Sbjct:    28 FACYLLTSLSPRHKGQTYIGFTVNPRRRIRQHNGEITSGAWRTKKKRPWEMVLCIYGF 85

GO:0004518 "nuclease activity" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0006281 "DNA repair" evidence=IEA;ISS

SGD|S000000432 SLX1 "Endonuclease involved in DNA recombination and repair" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 111 (44.1 bits), Expect = 5.8e-06, P = 5.8e-06
 Identities = 27/56 (48%), Positives = 35/56 (62%)

Query:    52 YLIISTNPPIKTYVGTTTNFPRRLKQHNGELR-GGA-KASQAG-RPWISACIIQGF 104
             YL+ S N     YVG+T N  RRL+QHNG+L  GGA +  + G RPW    I++GF
Sbjct:    17 YLLQSINKRQSFYVGSTPNPVRRLRQHNGKLAVGGAYRTKRDGSRPWEMIMIVRGF 72

GO:0005634 "nucleus" evidence=IEA;IC

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0090305 "nucleic acid phosphodiester bond hydrolysis" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IDA

GO:0006261 "DNA-dependent DNA replication" evidence=IGI

GO:0033557 "Slx1-Slx4 complex" evidence=IPI

UNIPROTKB|Q9BQ83 SLX1A "Structure-specific endonuclease subunit SLX1" [Homo sapiens (taxid:9606)]

 Score = 110 (43.8 bits), Expect = 6.1e-06, P = 6.1e-06
 Identities = 24/61 (39%), Positives = 33/61 (54%)

Query:    47 RSWSVYLIISTNPPIK--TYVGTTTNFPRRLKQHNG-ELRGGAKASQAGRPWISACIIQG 103
             R + VYL+   NP  +   YVG T N  RR++QHNG   +GGA  +    PW    ++ G
Sbjct:    12 RFFGVYLLYCLNPRYRGRVYVGFTVNTARRVQQHNGGRKKGGAWRTSGRGPWEMVLVVHG 71

Query:   104 F 104
             F
Sbjct:    72 F 72

GO:0046872 "metal ion binding" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=IDA

GO:0008821 "crossover junction endodeoxyribonuclease activity" evidence=IDA

GO:0010792 "DNA double-strand break processing involved in repair via single-strand annealing" evidence=IMP

GO:0006281 "DNA repair" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0033557 "Slx1-Slx4 complex" evidence=IDA

GO:0000724 "double-strand break repair via homologous recombination" evidence=IMP

MGI|MGI:1915220 Slx1b "SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 109 (43.4 bits), Expect = 7.6e-06, P = 7.6e-06
 Identities = 26/61 (42%), Positives = 33/61 (54%)

Query:    47 RSWSVYLIISTNPPIK--TYVGTTTNFPRRLKQHN-GELRGGAKASQAGRPWISACIIQG 103
             R + VYL+   NP  +   YVG T N  RR++QHN G  +GGA  +    PW    II G
Sbjct:     9 RFFGVYLLYCQNPRHRGRVYVGFTVNPARRVRQHNAGRKKGGAWRTSGRGPWDMVLIIHG 68

Query:   104 F 104
             F
Sbjct:    69 F 69

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISO

GO:0004518 "nuclease activity" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=ISO

GO:0006310 "DNA recombination" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=IEA

GO:0008821 "crossover junction endodeoxyribonuclease activity" evidence=ISO

GO:0010792 "DNA double-strand break processing involved in repair via single-strand annealing" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0017108 "5'-flap endonuclease activity" evidence=ISO

GO:0033557 "Slx1-Slx4 complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

RGD|1311568 Slx1b "SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)" [Rattus norvegicus (taxid:10116)]

 Score = 107 (42.7 bits), Expect = 1.3e-05, P = 1.3e-05
 Identities = 25/61 (40%), Positives = 33/61 (54%)

Query:    47 RSWSVYLIISTNPPIK--TYVGTTTNFPRRLKQHN-GELRGGAKASQAGRPWISACIIQG 103
             R + VYL+   NP  +   YVG T N  RR++QHN G  +GGA  +    PW    I+ G
Sbjct:     9 RFFGVYLLYCQNPRHRGRVYVGFTVNPARRVRQHNAGRKKGGAWRTSGRGPWDMVLILHG 68

Query:   104 F 104
             F
Sbjct:    69 F 69

GO:0000724 "double-strand break repair via homologous recombination" evidence=ISO

GO:0004519 "endonuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA;ISO

GO:0006310 "DNA recombination" evidence=IEA

GO:0008821 "crossover junction endodeoxyribonuclease activity" evidence=ISO

GO:0010792 "DNA double-strand break processing involved in repair via single-strand annealing" evidence=ISO

GO:0017108 "5'-flap endonuclease activity" evidence=ISO

GO:0033557 "Slx1-Slx4 complex" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|Q32PI0 SLX1A "Structure-specific endonuclease subunit SLX1" [Bos taurus (taxid:9913)]

 Score = 104 (41.7 bits), Expect = 2.7e-05, P = 2.7e-05
 Identities = 24/59 (40%), Positives = 32/59 (54%)

Query:    49 WSVYLIISTNPPIK--TYVGTTTNFPRRLKQHNG-ELRGGAKASQAGRPWISACIIQGF 104
             + VYL+   NP  +   YVG T N  RR++QHNG   +GGA  +    PW    I+ GF
Sbjct:     7 FGVYLLYCLNPRHRGRVYVGFTVNPARRVQQHNGGRKKGGAWRTSGRGPWEMVLIVHGF 65

GO:0005634 "nucleus" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0006310 "DNA recombination" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0004519 "endonuclease activity" evidence=IEA

WB|WBGene00018909 slx-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 106 (42.4 bits), Expect = 3.9e-05, P = 3.9e-05
 Identities = 24/61 (39%), Positives = 35/61 (57%)

Query:    49 WSVYLIISTN--PPIKT--YVGTTTNFPRRLKQHNGEL-RGGAKASQAGRPWISACIIQG 103
             + VY +IS +  P  K   Y+G T +  RR+ QHNG   +GGAK + +  PW   C++ G
Sbjct:   173 YGVYCLISRSDRPCYKNRCYIGYTVDPNRRIMQHNGGRDKGGAKKTDSRGPWDMVCVVHG 232

Query:   104 F 104
             F
Sbjct:   233 F 233

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

---

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	109
cd10455	76	cd10455, GIY-YIG_SLX1, Catalytic GIY-YIG domain of	2e-25
cd10449	67	cd10449, GIY-YIG_SLX1_like, Catalytic GIY-YIG doma	3e-08
pfam01541	76	pfam01541, GIY-YIG, GIY-YIG catalytic domain	1e-06
COG2827	95	COG2827, COG2827, Predicted endonuclease containin	2e-04
cd10456	68	cd10456, GIY-YIG_UPF0213, The GIY-YIG domain of un	3e-04
smart00465	84	smart00465, GIYc, GIY-YIG type nucleases (URI doma	4e-04
PRK00329	86	PRK00329, PRK00329, GIY-YIG nuclease superfamily p	4e-04
cd00719	69	cd00719, GIY-YIG_SF, GIY-YIG nuclease domain super	5e-04
cd10437	90	cd10437, GIY-YIG_HE_I-TevI_like, N-terminal cataly	0.001
cd10439	80	cd10439, GIY-YIG_COG3410, GIY-YIG domain of unchar	0.001

>gnl|CDD|198402 cd10455, GIY-YIG_SLX1, Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its eukaryotic homologs

 Score = 90.4 bits (225), Expect = 2e-25
 Identities = 31/62 (50%), Positives = 40/62 (64%), Gaps = 2/62 (3%)

Query: 49  WSVYLIISTNP--PIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHD 106
           + VYL+ S NP    +TY+G T N PRRL+QHNGEL+GGAK +   RPW    I+ GF  
Sbjct: 2   YGVYLLRSLNPKYKGRTYIGFTVNPPRRLRQHNGELKGGAKKTSRKRPWEMVLIVHGFPS 61

Query: 107 QS 108
           + 
Sbjct: 62  KV 63

Structure-specific endonuclease subunit SLX1 is a highly conserved protein from yeast to human, with an N-terminal GIY-YIG endonuclease domain and a C-terminal PHD-type zinc finger postulated to mediate protein-protein or protein-DNA interaction. SLX1 forms active heterodimeric complexes with its SLX4 partner, which has additional roles in the DNA damage response that are distinct from the function of the heterodimeric SLX1-SLX4 nuclease. In yeast, the SLX1-SLX4 complex functions as a 5' flap endonuclease that maintains ribosomal DNA copy number, where SLX1 and SLX4 are shown to be catalytic and regulatory subunits, respectively. This endonuclease introduces single-strand cuts in duplex DNA on the 3' side of junctions with single-strand DNA. In addition to 5' flap endonuclease activity, human SLX1-SLX4 complex has been identified as a Holliday junction resolvase that promotes symmetrical cleavage of static and migrating Holliday junctions. SLX1 also associates with MUS81, EME1, C20orf94, PLK1, and ERCC1. Some eukaryotic SLX1 homologs lack the zinc finger domain, but possess intrinsically unstructured extensions of unknown function. These unstructured segments might be involved in interactions with other proteins. Length = 76

>gnl|CDD|198396 cd10449, GIY-YIG_SLX1_like, Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its homologs

 Score = 46.4 bits (111), Expect = 3e-08
 Identities = 19/59 (32%), Positives = 30/59 (50%), Gaps = 5/59 (8%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD 109
           VY++ S     + Y+G T++  RRL+QHN    G +K +   RPW        F  +S+
Sbjct: 2   VYILYSEKLD-RYYIGYTSDLERRLEQHNS---GKSKFTSKYRPWELVYSEA-FESKSE 55

Structure-specific endonuclease subunit SLX1 is a highly conserved protein from yeast to human, with an N-terminal GIY-YIG endonuclease domain and a C-terminal PHD-type zinc finger postulated to mediate protein-protein or protein-DNA interaction. SLX1 forms active heterodimeric complexes with its SLX4 partner, which has additional roles in the DNA damage response that are distinct from the function of the heterodimeric SLX1-SLX4 nuclease. In yeast, the SLX1-SLX4 complex functions as a 5' flap endonuclease that maintains ribosomal DNA copy number, where SLX1 and SLX4 are shown to be catalytic and regulatory subunits, respectively. This endonuclease introduces single-strand cuts in duplex DNA on the 3' side of junctions with single-strand DNA. In addition to 5' flap endonuclease activity, human SLX1-SLX4 complex has been identified as a Holliday junction resolvase that promotes symmetrical cleavage of static and migrating Holliday junctions. SLX1 also associates with MUS81, EME1, C20orf94, PLK1, and ERCC1. Some eukaryotic SLX1 homologs lack the zinc finger domain, but possess intrinsically unstructured extensions of unknown function. These unstructured segments might be involved in interactions with other proteins. Length = 67

>gnl|CDD|216559 pfam01541, GIY-YIG, GIY-YIG catalytic domain

 Score = 42.3 bits (100), Expect = 1e-06
 Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 4/61 (6%)

Query: 49  WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQS 108
             VY+I + +     YVG+T N  RRLKQH      GAK ++  +P+    I++ F  + 
Sbjct: 2   PGVYIITNKDNK-VLYVGSTKNLKRRLKQHFSGK--GAKKTRNKKPFE-LIILEEFPTKE 57

Query: 109 D 109
           +
Sbjct: 58  E 58

This domain called GIY-YIG is found in the amino terminal region of excinuclease abc subunit c (uvrC), bacteriophage T4 endonucleases segA, segB, segC, segD and segE; it is also found in putative endonucleases encoded by group I introns of fungi and phage. The structure of I-TevI a GIY-YIG endonuclease, reveals a novel alpha/beta-fold with a central three-stranded antiparallel beta-sheet flanked by three helices. The most conserved and putative catalytic residues are located on a shallow, concave surface and include a metal coordination site. Length = 76

>gnl|CDD|225383 COG2827, COG2827, Predicted endonuclease containing a URI domain [DNA replication, recombination, and repair]

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 6/51 (11%)

Query: 45 NSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHN-GELRGGAKASQAGRP 94
           + +W VY++   +  +  Y G TT+  RRL +HN G+   GAK ++   P
Sbjct: 1  TANNWYVYILRCADGTL--YTGVTTDLERRLAEHNSGK---GAKYTRRYGP 46

Length = 95

>gnl|CDD|198403 cd10456, GIY-YIG_UPF0213, The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1

 Score = 35.9 bits (84), Expect = 3e-04
 Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 14/51 (27%)

Query: 49 WSVYLIISTNPPIKT-----YVGTTTNFPRRLKQHNGELRGGAKASQAGRP 94
          W VY++       +      Y G TT+  RRL +HN     GAK ++  RP
Sbjct: 1  WYVYIL-------RCADGSLYTGITTDLERRLAEHNSGK--GAKYTRGRRP 42

This family contains a group of uncharacterized proteins found mainly in bacteria and several in dsDNA viruses. Although their function roles have not been recognized, these proteins show significant sequence similarities with the N-terminal GIY-YIG endonuclease domain of structure-specific endonuclease subunit SLX1, which binds another structure-specific endonuclease subunit SLX4 to form an active heterodimeric SLX1-SLX4 complex. This complex functions as a 5' flap endonuclease in yeast, and has also been identified as a Holliday junction resolvase in human. Length = 68

>gnl|CDD|214677 smart00465, GIYc, GIY-YIG type nucleases (URI domain)

 Score = 36.2 bits (84), Expect = 4e-04
 Identities = 18/58 (31%), Positives = 19/58 (32%), Gaps = 3/58 (5%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAG--RPWISACIIQGFHD 106
           VY I       K YVG   N   RLK+H    R G     A          II    D
Sbjct: 4   VYYIT-NKKNGKLYVGKAKNLRNRLKRHFSGSRKGRLLIDALLKYGGNFEFIILESFD 60

Length = 84

>gnl|CDD|178979 PRK00329, PRK00329, GIY-YIG nuclease superfamily protein; Validated

 Score = 36.1 bits (84), Expect = 4e-04
 Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 6/53 (11%)

Query: 43 NSNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRG-GAKASQAGRP 94
           +  + W +YL+   +  +  Y G TT+  RR  QH     G GAK ++   P
Sbjct: 1  MAEMKPWFLYLLRCADGSL--YTGITTDVERRFAQHQ---SGKGAKYTRGRPP 48

Length = 86

>gnl|CDD|198380 cd00719, GIY-YIG_SF, GIY-YIG nuclease domain superfamily

 Score = 35.4 bits (82), Expect = 5e-04
 Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 5/56 (8%)

Query: 51  VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHD 106
           VY++   +  +  YVG T N   R+K+H  + R                +      
Sbjct: 2   VYVLYDEDNGLI-YVGQTKNLRNRIKEHLRKQRSDWTK----GLKPFEILYLEVAP 52

The GIY-YIG nuclease domain superfamily includes a large and diverse group of proteins involved in many cellular processes, such as class I homing GIY-YIG family endonucleases, prokaryotic nucleotide excision repair proteins UvrC and Cho, type II restriction enzymes, the endonuclease/reverse transcriptase of eukaryotic retrotransposable elements, and a family of eukaryotic enzymes that repair stalled replication forks. All of these members contain a conserved GIY-YIG nuclease domain that may serve as a scaffold for the coordination of a divalent metal ion required for catalysis of the phosphodiester bond cleavage. By combining with different specificity, targeting, or other domains, the GIY-YIG nucleases may perform different functions. Length = 69

>gnl|CDD|198384 cd10437, GIY-YIG_HE_I-TevI_like, N-terminal catalytic domain of GIY-YIG intron endonuclease I-TevI, I-BmoI, I-BanI, I-BthII and similar proteins

 Score = 34.9 bits (81), Expect = 0.001
 Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)

Query: 51 VYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGG 85
          +Y I +     K Y+G++ N  +RL QH  +L+ G
Sbjct: 3  IYKITN-LENGKIYIGSSKNILKRLSQHKRDLKAG 36

I-TevI is a site-specific GIY-YIG homing endonuclease encoded within the group I intron of the thymidylate synthase gene (td) from Escherichia coli phage T4. It functions as an endonuclease that catalyzes the first step in intron homing by generating a double-strand break in the intronless td allele within a sequence designated the homing site. I-TevI recognizes its extensive 37 base pair DNA target in a site-specific, but sequence-tolerant manner. The cleavage site is located at 23 (upper strand) and 25 (lower strand) nucleotides upstream of the intron insertion site. A divalent cation, such as Mg2+, is required for the catalysis. I-TevI also acts as a repressor of its own transcription. It binds an operator that is located upstream of the I-TevI coding sequence and overlaps the T4 late promoter, which drives I-TevI expression from within the td intron. I-TevI binds the homing sites and the operator with the same affinity, but cleaves the homing site more efficiently than the operator. I-TevI consists of an N-terminal catalytic domain, containing the GIY-YIG motif, and a C-terminal DNA-binding domain that binds DNA as a monomer, joined by a flexible linker. The C-terminal domain includes three subdomains: a zinc finger, a minor-groove binding alpha-helix (NUMOD3, nuclease-associated modular domain 3), and a helix-turn-helix domain (HTH). The last two are responsible for DNA-binding. The zinc finger is part of the linker and not required for DNA-binding. It is implicated as a distance sensor to constrain the catalytic domain to cleave the homing site at a fixed position. None of other GIY-YIG endonucleases have been found to have the zinc finger motif. This family also includes a reduced activity isoschizomer of I-TevI, I-BmoI, which is encoded within the group I intron of the thymidylate synthase (TS) gene (thyA) from Bacillus mojavensis. I-BmoI catalyzes the first step in intron homing by generating a double-strand break in the intronless td allele within a sequence designated the homing site in the presence of a divalent cation cofactor, such as Mg2+. In the absence of Mg2+, I-Bmol only nicks one of the strands. Both I-BmoI and I-TevI bind a homologous stretch of TS-encoding DNA as monomers, but use different strategies to distinguish intronless from intron-containing substrates. I-TevI recognizes substrates at the level of DNA-binding. However, I-BmoI binds both intron-containing and intronless TS-encoding substrates, but efficiently cleaves only intronless substrate. Afterwards they cleave their respective intronless substrates in the same positions, and both require a critical G-C base pair adjacent to the top strand site for efficient cleavage. The C-terminal domain of I-BmoI has nuclease-associated modular DNA-binding domains (NUMODs), but lacks the zinc finger, which is different from that of I-TevI. Although the zinc finger implicated as a distance determination in I-TevI is absent, I-BmoI still possesses some cleavage distance discrimination. Besides I-TevI and I-BmoI, this family contains a putative GIY-YIG homing endonuclease, I-BanI, encoded within the self-splicing group I intron of nrdE gene from Bacillus anthracis. It contains two major domains, the N-terminal GIY-YIG domain and the C-terminal DNA-binding domain that consists of a minor-groove DNA binding alpha-helix motif and a helix-turn-helix (HTH) motif. I-BanI generates a double-strand break (DSB) in the intronless nrdE gene. The cleavage site is located at 5 and 7 nucleotides upstream of the intron insertion site, with 2-nucleotide 3' extensions. The recognition site is 35 to 40 base pairs and covers the cleavage site with a bias toward the downstream region including the (intervening sequence) IVS insertion site. Moreover, this family contains another putative GIY-YIG homing endonuclease, I-BthII, encoded within the self-splicing group I intron of nrdF gene from Bacillus thuringiensis ssp. pakistani. It contains a GIY-YIG motif that generates a double-strand break (DSB) in the intronless nrdF gene. The cleavage site is located at 7 and 9 nucleotides upstream of the intron insertion site, leaving 2-nucleotide 3' extensions. The recognition site is 27 to 29 base pairs with the DSB cleavage site at the 5'-end of the top strand, and with the intervening sequence (IVS) insertion site approximately in the middle of the recognition site. Length = 90

>gnl|CDD|198386 cd10439, GIY-YIG_COG3410, GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410

 Score = 34.5 bits (80), Expect = 0.001
 Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)

Query: 50 SVYLIISTNPPIKTYVGTTTNFPRRLKQH 78
           VY++       K Y+G T N  RRLKQH
Sbjct: 4  VVYILYDKKKK-KVYIGETNNILRRLKQH 31

This family contains a group of uncharacterized bacterial proteins. Although their function roles have not been recognized, these proteins contain a putative GIY-YIG domain in their N-terminus. Moreover, a conserved domain COG3410 with unknown function has been found in the C-terminus of most family members. Length = 80

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	109
PRK00329	86	GIY-YIG nuclease superfamily protein; Validated	99.9
COG2827	95	Predicted endonuclease containing a URI domain [DN	99.87
KOG3005	276	consensus GIY-YIG type nuclease [General function	99.32
PF01541	80	GIY-YIG: GIY-YIG catalytic domain; InterPro: IPR00	99.12
smart00465	84	GIYc GIY-YIG type nucleases (URI domain).	98.34
TIGR01453	214	grpIintron_endo group I intron endonuclease. This	97.22
PF10544	100	T5orf172: T5orf172 domain; InterPro: IPR018306 Thi	97.1
PHA02598	138	denA endonuclease II; Provisional	94.51
PRK10545	286	nucleotide excision repair endonuclease; Provision	94.01
PRK14671	621	uvrC excinuclease ABC subunit C; Provisional	90.32
PRK12306	519	uvrC excinuclease ABC subunit C; Reviewed	90.28
PRK07883	557	hypothetical protein; Validated	90.0
PRK00558	598	uvrC excinuclease ABC subunit C; Validated	89.86
TIGR00194	574	uvrC excinuclease ABC, C subunit. This family cons	89.24
PRK14666	694	uvrC excinuclease ABC subunit C; Provisional	88.98
PRK14669	624	uvrC excinuclease ABC subunit C; Provisional	88.52
PRK14672	691	uvrC excinuclease ABC subunit C; Provisional	88.03
PRK14667	567	uvrC excinuclease ABC subunit C; Provisional	87.64
PRK14668	577	uvrC excinuclease ABC subunit C; Provisional	85.49

>PRK00329 GIY-YIG nuclease superfamily protein; Validated

Probab=99.90  E-value=9.6e-24  Score=143.49  Aligned_cols=61  Identities=28%  Similarity=0.540  Sum_probs=55.7

Q ss_pred             CCCCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcCCCCCccccCCCCCcEEEEEEeeeCCCCC
Q 047362           44 SNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD  109 (109)
Q Consensus        44 ~~~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr~~~Pw~LV~~~E~f~~kse  109 (109)
                      +..++||||||+|.++.  +|||+|+||.+||+|||.  +.|++||++++||+|| |+|.|++++|
T Consensus         2 ~~~~~~~vYil~~~~~~--~Y~G~T~dl~~Rl~qH~~--g~ga~~tr~~~p~~Lv-~~e~~~~~~~   62 (86)
T PRK00329          2 AEMKPWFLYLLRCADGS--LYTGITTDVERRFAQHQS--GKGAKYTRGRPPLTLV-FVEPVGDRSE   62 (86)
T ss_pred             CCCCceEEEEEEcCCCC--EEEEEcCCHHHHHHHHHc--CCCCCCccCCCceEEE-EEEECCCHHH
Confidence            45788999999998876  999999999999999998  4689999999999999 8999999764

>COG2827 Predicted endonuclease containing a URI domain [DNA replication, recombination, and repair]

Probab=99.87  E-value=2.1e-22  Score=140.30  Aligned_cols=58  Identities=33%  Similarity=0.568  Sum_probs=54.6

Q ss_pred             CccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcCCCCCccccCCCCCcEEEEEEeeeCCCCC
Q 047362           47 RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD  109 (109)
Q Consensus        47 ~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr~~~Pw~LV~~~E~f~~kse  109 (109)
                      +.||||||.|.||.  ||||+|+||.+|+.|||+  ++|++||+.++|.+|| |+|.|+++++
T Consensus         3 ~~~~vYil~c~dgt--lY~GvT~D~~rR~~~H~~--GkgakyT~~~~~~~Lv-~~e~~~~~~~   60 (95)
T COG2827           3 NNWYVYILRCADGT--LYTGVTTDLERRLAEHNS--GKGAKYTRRYGPVRLV-WYEEFDDKSE   60 (95)
T ss_pred             cceEEEEEEeCCCC--EEEEecCCHHHHHHHHhc--ccccchhccCCceEEE-EEeecCCHHH
Confidence            47999999999888  999999999999999998  5799999999999999 9999999864

>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]

Probab=99.32  E-value=3.5e-12  Score=102.69  Aligned_cols=65  Identities=38%  Similarity=0.721  Sum_probs=57.0

Q ss_pred             CCCCCccEEEEeEeCC--CCCceEEEEeCCHHHHHHHHhcCCCCCccccCCCCCcEEEEEEeeeCCC
Q 047362           43 NSNSRSWSVYLIISTN--PPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQ  107 (109)
Q Consensus        43 ~~~~~~yyVYIL~s~~--~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr~~~Pw~LV~~~E~f~~k  107 (109)
                      .+....|++|+|.|.+  ..++.|||+|.|+.+||+|||+...+||.-|++++||+||+.+..|+++
T Consensus         3 ~~~~~Fy~cYlL~s~sp~~r~~~yigst~nP~rRlRqhNg~~~gga~kt~~~~PWeMv~iV~GFPn~   69 (276)
T KOG3005|consen    3 KDGKGFYCCYLLTSLSPRYKGRTYIGSTVNPSRRLRQHNGEIKGGAWKTKKRRPWEMVMIVHGFPNK   69 (276)
T ss_pred             cccCceEEEEEEeecCcCcCCceEEeeeCCCchhHHhhCCcccCcccccCCCCCceEEEEeccCCcc
Confidence            3456789999999977  2247999999999999999998667889999999999999999999985

>PF01541 GIY-YIG: GIY-YIG catalytic domain; InterPro: IPR000305 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []

Probab=99.12  E-value=7.5e-11  Score=74.84  Aligned_cols=57  Identities=26%  Similarity=0.511  Sum_probs=45.3

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcCCCCCccccC----CCCCcEEEEEEeeeCCCC
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQ----AGRPWISACIIQGFHDQS  108 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr----~~~Pw~LV~~~E~f~~ks  108 (109)
                      +++||+|.|.++. .+|||.|.||.+||.+|..+  .+...+.    ....+.++ +++.+.+..
T Consensus         1 k~gIY~i~~~~~~-~~YIG~t~nl~~R~~~H~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~~~   61 (80)
T PF01541_consen    1 KYGIYIIYNKDNK-KIYIGSTKNLKKRLNEHFSG--NKSKKKKQKKYGWDNFEFI-IIEEFNTKS   61 (80)
T ss_dssp             -EEEEEEEETTTE-EEEEEEESSHHHHHHHHHHH--CTHCSHCHHHHHSSCEEEE-EEEEESSHH
T ss_pred             CcEEEEEEECCCC-EEEEEEECCHHHHHHHHhcC--CCCCcchhhhcccccEEEE-eeEEeCCHH
Confidence            4789999999998 89999999999999999874  2333333    26889998 788887653

The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. It is found in the amino terminal region of excinuclease abc subunit c (uvrC), Bacteriophage T4 endonucleases segA, segB, segC, segD and segE; it is also found in putative endonucleases encoded by group I introns of fungi and phage.; GO: 0004518 nuclease activity, 0006281 DNA repair, 0005622 intracellular; PDB: 1YWL_A 1YD6_D 1YD5_A 1YD1_A 1YCZ_A 1YD0_A 1YD3_A 1YD4_A 1YD2_A 1LN0_A ....

>smart00465 GIYc GIY-YIG type nucleases (URI domain)

Probab=98.34  E-value=9.5e-07  Score=55.84  Aligned_cols=32  Identities=38%  Similarity=0.531  Sum_probs=28.6

Q ss_pred             cEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcC
Q 047362           49 WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGE   81 (109)
Q Consensus        49 yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~   81 (109)
                      ..||++.+.++. ++|||.|.||.+|+.+|...
T Consensus         2 ~gvY~i~~~~~~-~~YVG~t~nl~~R~~~h~~~   33 (84)
T smart00465        2 PGVYYITNKKNG-KLYVGKAKNLRNRLKRHFSG   33 (84)
T ss_pred             CEEEEEEECCCC-EEEEEEccCHHHHHHHHHhC
Confidence            369999997777 89999999999999999964

>TIGR01453 grpIintron_endo group I intron endonuclease

Probab=97.22  E-value=0.00057  Score=52.61  Aligned_cols=31  Identities=35%  Similarity=0.568  Sum_probs=27.8

Q ss_pred             EEEEeEeCCCCCceEEEEeCCHHHHHHHHhcC
Q 047362           50 SVYLIISTNPPIKTYVGTTTNFPRRLKQHNGE   81 (109)
Q Consensus        50 yVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~   81 (109)
                      .||+|.|...+ ++|||.|.||.+||.+|...
T Consensus         3 GIY~i~n~~ng-k~YIGss~nl~~R~~~h~~~   33 (214)
T TIGR01453         3 GIYKITNNING-KIYVGSSVNLEKRLKEHLKL   33 (214)
T ss_pred             EEEEEEECCCC-cEEEEeccCHHHHHHHHHHH
Confidence            59999997766 79999999999999999864

This model represents one subfamily of endonucleases containing the endo/excinuclease amino terminal domain, Pfam:PF01541 at its amino end. A distinct subfamily includes excinuclease abc subunit c (uvrC). Members of pfam01541 are often termed GIY-YIG endonucleases after conserved motifs near the amino end. This subfamily in this model is found in open reading frames of group I introns in both phage and mitochondria. The closely related endonucleases of phage T4: segA, segB, segC, segD and segE, score below the trusted cutoff for the family.

>PF10544 T5orf172: T5orf172 domain; InterPro: IPR018306 This entry represents a DNA-binding domain found in bacteriophage T5, ORF172 []

Probab=97.10  E-value=0.0035  Score=41.09  Aligned_cols=43  Identities=26%  Similarity=0.322  Sum_probs=32.5

Q ss_pred             EEEEeEeCCCCCc--eEEEEeCCHHHHHHHHhcCCCCCccccCCCCCcEEE
Q 047362           50 SVYLIISTNPPIK--TYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISA   98 (109)
Q Consensus        50 yVYIL~s~~~~~~--lYiG~T~DL~rRl~qHn~~~~~gak~Tr~~~Pw~LV   98 (109)
                      ||||+.+......  +=||.|+|+.+|+.|++.      ..+....+|.++
T Consensus         2 yiYi~~~~~~~~~~~~KIG~T~~~~~Rl~~~~~------~~~~~~~~~~~~   46 (100)
T PF10544_consen    2 YIYILTSPSNPGYNIYKIGYTTNPERRLRELNR------NSTGSPFDFEVI   46 (100)
T ss_pred             EEEEEEecCCCCceeEEEeeECCHHHHHHHhhc------cccCCCCceeEE
Confidence            8999977665434  779999999999999993      133446677776

The domain is related to the Bro-N and KilA-N domains that are widespread in large-DNA viruses infecting bacteria and eukaryotes [].

>PHA02598 denA endonuclease II; Provisional

Probab=94.51  E-value=0.054  Score=40.34  Aligned_cols=33  Identities=21%  Similarity=0.440  Sum_probs=28.9

Q ss_pred             CCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           46 SRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        46 ~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .+...||++. .++. .+|||-+.||.+|+.++..
T Consensus        31 ~~~n~VY~~~-~~~~-viYVGKAknLkkRv~sYf~   63 (138)
T PHA02598         31 NKKNVIYAIA-VDDE-LVYIGKTKNLRKRIDYYRN   63 (138)
T ss_pred             ccceEEEEEE-eCCe-EEEEeehhhHHHHHHHHhC
Confidence            4666899999 6667 8999999999999999975

>PRK10545 nucleotide excision repair endonuclease; Provisional

Probab=94.01  E-value=0.056  Score=43.98  Aligned_cols=32  Identities=25%  Similarity=0.362  Sum_probs=27.8

Q ss_pred             ccEEEEeEeCCCCCc-eEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIK-TYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~-lYiG~T~DL~rRl~qHn~   80 (109)
                      .-=||+....++. . +|||=+.||.+|+.+|=.
T Consensus        34 ~PGVYlf~d~~g~-~~LYVGKAknLR~RV~syF~   66 (286)
T PRK10545         34 LPGVYLFHGESDT-MPLYIGKSVNIRSRVLSHLR   66 (286)
T ss_pred             CCeEEEEEcCCCC-EEEEEechHhHHHHHHHHcC
Confidence            3459999998886 5 899999999999999964

>PRK14671 uvrC excinuclease ABC subunit C; Provisional

Probab=90.32  E-value=0.3  Score=43.50  Aligned_cols=33  Identities=24%  Similarity=0.296  Sum_probs=29.4

Q ss_pred             CccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           47 RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        47 ~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      ..-=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        21 ~~PGVYl~~d~~g~-viYVGKAknLr~RV~sYF~   53 (621)
T PRK14671         21 TSPGVYQFKNAAGR-VIYVGKAKNLRNRVRSYFR   53 (621)
T ss_pred             CCCeEEEEECCCCC-EEEeecchhHHHHHHHHcC
Confidence            33459999999999 9999999999999999964

>PRK12306 uvrC excinuclease ABC subunit C; Reviewed

Probab=90.28  E-value=0.29  Score=42.84  Aligned_cols=31  Identities=23%  Similarity=0.308  Sum_probs=28.6

Q ss_pred             cEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           49 WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        49 yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      -=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        11 PGVYl~~d~~g~-vIYVGKAknLr~RV~sYF~   41 (519)
T PRK12306         11 PGCYLYKDEEGT-IIYVGKAKNLKKRVSSYFQ   41 (519)
T ss_pred             CeEEEEECCCCC-EEEeccchhHHHHHHHhCC
Confidence            359999999999 9999999999999999974

>PRK07883 hypothetical protein; Validated

Probab=90.00  E-value=0.31  Score=42.58  Aligned_cols=34  Identities=29%  Similarity=0.404  Sum_probs=30.4

Q ss_pred             CCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           46 SRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        46 ~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      +..-=||+....++. .+|||=+.||.+|+.+|=.
T Consensus       215 P~~PGVY~~~d~~g~-viYVGKAknLr~Rv~sYF~  248 (557)
T PRK07883        215 PHAPGVYLFRGPSGE-VLYVGTAVNLRRRVRSYFT  248 (557)
T ss_pred             CCCceEEEEECCCCc-EEEeehhhhHHHHHHHHcC
Confidence            455569999999999 9999999999999999964

>PRK00558 uvrC excinuclease ABC subunit C; Validated

Probab=89.86  E-value=0.29  Score=43.23  Aligned_cols=34  Identities=26%  Similarity=0.348  Sum_probs=30.0

Q ss_pred             CCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           46 SRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        46 ~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      +...=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        12 P~~PGVY~~~d~~g~-viYVGKAknLr~Rv~sYF~   45 (598)
T PRK00558         12 PDSPGVYRMKDANGT-VIYVGKAKNLKNRVRSYFR   45 (598)
T ss_pred             CCCCeEEEEECCCCC-EEEecCchhHHHHHHhhCC
Confidence            344569999999999 9999999999999999964

>TIGR00194 uvrC excinuclease ABC, C subunit

Probab=89.24  E-value=0.37  Score=42.58  Aligned_cols=32  Identities=25%  Similarity=0.355  Sum_probs=29.0

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .-=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        11 ~PGVYl~~d~~g~-viYVGKAknLr~Rv~sYF~   42 (574)
T TIGR00194        11 KPGCYLMKDRNGQ-VLYVGKAKNLKKRVSSYFR   42 (574)
T ss_pred             CCeEEEEECCCCC-EEEEecHHHHHHHHHHhcC
Confidence            3359999999999 9999999999999999974

This family consists of the DNA repair enzyme UvrC, an ABC excinuclease subunit which interacts with the UvrA/UvrB complex to excise UV-damaged nucleotide segments.

>PRK14666 uvrC excinuclease ABC subunit C; Provisional

Probab=88.98  E-value=0.4  Score=43.54  Aligned_cols=32  Identities=25%  Similarity=0.309  Sum_probs=28.9

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .-=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        12 ~PGVYlfkD~~G~-VIYVGKAKNLR~RV~SYF~   43 (694)
T PRK14666         12 TPGVYLYKDEAGR-IIYVGKARHLRRRVASYFR   43 (694)
T ss_pred             CCeEEEEECCCCC-EEEeeCcHhHHHHHHHHcC
Confidence            3359999999999 9999999999999999964

>PRK14669 uvrC excinuclease ABC subunit C; Provisional

Probab=88.52  E-value=0.47  Score=42.41  Aligned_cols=33  Identities=27%  Similarity=0.356  Sum_probs=29.3

Q ss_pred             CccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           47 RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        47 ~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      ..-=||+....++. .+|||=+.||.+|+.+|=.
T Consensus        12 ~~PGVYl~~d~~g~-viYVGKAknLr~RV~sYF~   44 (624)
T PRK14669         12 TSPGVYLYKNAGGE-VIYVGKAKNLRSRVRSYFS   44 (624)
T ss_pred             CCCeEEEEECCCCC-EEEeeCchhHHHHHHHHhc
Confidence            33459999999999 9999999999999999964

>PRK14672 uvrC excinuclease ABC subunit C; Provisional

Probab=88.03  E-value=0.47  Score=43.09  Aligned_cols=32  Identities=25%  Similarity=0.303  Sum_probs=28.9

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .-=||++...++. .+|||=+.||.+|+.+|=.
T Consensus        21 ~PGVYlfkd~~G~-VLYVGKAKNLR~RV~SYF~   52 (691)
T PRK14672         21 TSGVYLWKDVHGV-VIYVGKAKSLRTRLTSYFR   52 (691)
T ss_pred             CCeEEEEECCCCC-EEEeeCcHHHHHHHHHHcC
Confidence            3459999999998 9999999999999999974

>PRK14667 uvrC excinuclease ABC subunit C; Provisional

Probab=87.64  E-value=0.51  Score=41.71  Aligned_cols=29  Identities=34%  Similarity=0.539  Sum_probs=26.5

Q ss_pred             EEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           50 SVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        50 yVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      =||+.. .++. .+|||=+.||.+|+.+|=.
T Consensus        18 GVYl~~-~~g~-viYVGKAknLr~RV~sYF~   46 (567)
T PRK14667         18 GVYLFK-KKKR-YIYIGKAKNIKNRLLQHYK   46 (567)
T ss_pred             eEEEEe-cCCe-EEEeeCcHhHHHHHHHHcC
Confidence            499999 8888 9999999999999999964

>PRK14668 uvrC excinuclease ABC subunit C; Provisional

Probab=85.49  E-value=0.73  Score=40.77  Aligned_cols=31  Identities=19%  Similarity=0.375  Sum_probs=26.3

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .-=||+... ++. .+|||=+.||.+|+.+|-.
T Consensus        16 ~PGVYl~~d-~g~-viYVGKAknLr~RV~sYF~   46 (577)
T PRK14668         16 EPGVYQFVA-GGT-VLYVGKAVDLRDRVRSYAD   46 (577)
T ss_pred             CCEEEEEcC-CCe-EEEeeCcHhHHHHHHHHcC
Confidence            335898886 677 8999999999999999964

---

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	109
1zg2_A	107	Hypothetical UPF0213 protein BH0048; BHR2, structu	2e-06
1ywl_A	96	Hypothetical UPF0213 protein EF2693; alpha and bet	2e-06

>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure, autostructure, northeast structural genomics consortium, PSI; NMR {Bacillus halodurans} Length = 107

 Score = 42.3 bits (100), Expect = 2e-06
 Identities = 14/52 (26%), Positives = 25/52 (48%), Gaps = 4/52 (7%)

Query: 44 SNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPW 95
           +  +  VY++   +     Y G TT+  RR+K+H      GAK ++   P+
Sbjct: 3  GDPMNHYVYILECKDG--SWYTGYTTDVDRRIKKHASG--KGAKYTRGRGPF 50

>1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural genomics, northeast structural genomics consortium (NESG); NMR {Enterococcus faecalis} Length = 96

 Score = 41.5 bits (98), Expect = 2e-06
 Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 44 SNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKA 88
           N +S   Y+++  +     Y G TT   RRL +HN     GAK 
Sbjct: 2  ENKKSHYFYVLLCQDG--SFYGGYTTEPERRLTEHNSGT--GAKY 42

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	109
1ywl_A	96	Hypothetical UPF0213 protein EF2693; alpha and bet	99.9
1zg2_A	107	Hypothetical UPF0213 protein BH0048; BHR2, structu	99.9
1mk0_A	97	Intron-associated endonuclease 1; alpha/beta fold,	97.66
1yd6_A	99	UVRC; DNA binding protein; 2.00A {Bacillus caldote	96.87
1yd0_A	96	Uvrabc system protein C; DNA binding protein; 1.50	96.51
2wsh_A	143	Endonuclease II; GIY-YIG, hydrolase; 1.90A {Entero	92.87

>1ywl_A Hypothetical UPF0213 protein EF2693; alpha and beta, structural genomics, northeast structural genomics consortium (NESG); NMR {Enterococcus faecalis}

Probab=99.90  E-value=1.2e-24  Score=150.07  Aligned_cols=61  Identities=33%  Similarity=0.489  Sum_probs=55.2

Q ss_pred             CCCCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcCCCCCccccC--CCCCcEEEEEEeeeCCCCC
Q 047362           44 SNSRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQ--AGRPWISACIIQGFHDQSD  109 (109)
Q Consensus        44 ~~~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr--~~~Pw~LV~~~E~f~~kse  109 (109)
                      .+.|+||||||.|.++.  ||||+|+||.+||+|||+  ++|++||+  +++||+|| |+|.|+++++
T Consensus         2 ~~~~~~~vYIL~~~~g~--lY~G~T~dl~rRl~qHn~--g~ga~~T~~~~~~p~~LV-y~e~f~~~~~   64 (96)
T 1ywl_A            2 ENKKSHYFYVLLCQDGS--FYGGYTTEPERRLTEHNS--GTGAKYTRLAKRRPVIMI-HTEKFETRSE   64 (96)
T ss_dssp             CSSSSEEEEEEECTTCC--CEEEEESCHHHHHHHHHH--HHSCSSCSSCCSSCCEEE-EEEEESSHHH
T ss_pred             CCCCceEEEEEEcCCCC--EEEEEeCCHHHHHHHHHc--CCCCCcccccCCCCeEEE-EEEecCCHHH
Confidence            45688999999998877  999999999999999998  46899999  99999999 8999999753

>1zg2_A Hypothetical UPF0213 protein BH0048; BHR2, structure, autostructure, northeast structural genomics consortium, PSI; NMR {Bacillus halodurans}

Probab=99.90  E-value=4.3e-24  Score=149.76  Aligned_cols=59  Identities=25%  Similarity=0.420  Sum_probs=53.6

Q ss_pred             CCccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhcCCCCCccccCCCCCcEEEEEEeeeCCCCC
Q 047362           46 SRSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNGELRGGAKASQAGRPWISACIIQGFHDQSD  109 (109)
Q Consensus        46 ~~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~~~~~gak~Tr~~~Pw~LV~~~E~f~~kse  109 (109)
                      +|+||||||.|.++.  +|||+|+||.+||+|||+  ++|++||++++||+|| |+|.|+++++
T Consensus         5 ~~~~~VYIL~~~~g~--lY~G~T~dl~rRl~qH~~--g~ga~~T~~~~p~~LV-y~e~f~~~~~   63 (107)
T 1zg2_A            5 PMNHYVYILECKDGS--WYTGYTTDVDRRIKKHAS--GKGAKYTRGRGPFRLV-ATWAFPSKEE   63 (107)
T ss_dssp             -CCEEEEEEECTTSC--EEEEEECCHHHHHHHHHH--HTTCCSCCCCSSCEEE-EEEEESCHHH
T ss_pred             CCceEEEEEEcCCCC--EEEEEECCHHHHHHHHHc--cCCCCccccCCCCEEE-EEEecCCHHH
Confidence            578999999998877  999999999999999998  4689999999999999 8999999753

>1mk0_A Intron-associated endonuclease 1; alpha/beta fold, catalytic domain, DNA-binding surface, hydrolase; HET: CIT; 1.60A {Enterobacteria phage T4} SCOP: d.226.1.1 PDB: 1ln0_A

Probab=97.66  E-value=7.4e-05  Score=49.80  Aligned_cols=33  Identities=33%  Similarity=0.510  Sum_probs=28.8

Q ss_pred             CccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           47 RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        47 ~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      |.--||+|.|...+ ++|||.|.||..|+.+|..
T Consensus         1 mk~GIY~I~n~~ng-k~YIGst~~l~~R~~~~~~   33 (97)
T 1mk0_A            1 MKSGIYQIKNTLNN-KVYVGSAKDFEKRWKRHFK   33 (97)
T ss_dssp             CCCEEEEEEETTTC-CEEEEEESSHHHHHHHHHH
T ss_pred             CceEEEEEEECCCC-CEEEEecCCHHHHHHHHHH
Confidence            44569999999777 7999999999999999963

>1yd6_A UVRC; DNA binding protein; 2.00A {Bacillus caldotenax}

Probab=96.87  E-value=0.00088  Score=45.54  Aligned_cols=33  Identities=18%  Similarity=0.309  Sum_probs=29.4

Q ss_pred             CccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           47 RSWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        47 ~~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      ..--||++...++. .+|||-+.||.+|+.+|-.
T Consensus        14 ~~pGVY~~~d~~g~-vlYVGKAknLr~Rv~syf~   46 (99)
T 1yd6_A           14 EQPGCYLMKDKHGT-VIYVGKAKSLKERVRSYFT   46 (99)
T ss_dssp             SSCEEEEEECSSCC-EEEEEEESCHHHHHHGGGS
T ss_pred             CCCeEEEEEcCCCC-EEEEecCcCHHHHHHHHcc
Confidence            34469999999998 9999999999999999965

>1yd0_A Uvrabc system protein C; DNA binding protein; 1.50A {Thermotoga maritima} PDB: 1ycz_A 1yd1_A 1yd4_A 1yd3_A 1yd2_A 1yd5_A

Probab=96.51  E-value=0.0018  Score=43.83  Aligned_cols=31  Identities=19%  Similarity=0.364  Sum_probs=27.7

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .--||++.. ++. .+|||-+.||.+|+.+|-.
T Consensus        15 ~pGVY~~~d-~g~-vlYVGKAknLr~Rv~syf~   45 (96)
T 1yd0_A           15 EPGVYIFKN-KGV-PIYIGKAKRLSNRLRSYLN   45 (96)
T ss_dssp             SCEEEEEEE-TTE-EEEEEEESSHHHHHHGGGS
T ss_pred             CCeEEEEEC-CCe-EEEEecCcCHHHHHHHHcc
Confidence            346999999 887 8999999999999999975

>2wsh_A Endonuclease II; GIY-YIG, hydrolase; 1.90A {Enterobacteria phage T4}

Probab=92.87  E-value=0.1  Score=37.88  Aligned_cols=30  Identities=27%  Similarity=0.428  Sum_probs=25.5

Q ss_pred             cEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           49 WSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        49 yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      --||++.. ++. .+|||-+.||.+|+...-.
T Consensus        41 ~GVY~~~~-~g~-ViYVGKAknLkkRv~sYf~   70 (143)
T 2wsh_A           41 NVIYAIAI-NDE-LVYIGKTKNLRKRINYYRT   70 (143)
T ss_dssp             SEEEEEEE-TTE-EEEEEEESCHHHHHHHHHH
T ss_pred             ceEEEEEc-CCe-EEEEEecccHhHHHHHhcC
Confidence            35888885 777 8999999999999999843

---

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	109
d1mk0a_	97	Homing endonuclease I-TevI {Bacteriophage T4 [TaxI	97.91

>d1mk0a_ d.226.1.1 (A:) Homing endonuclease I-TevI {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a+b)
fold: GIY-YIG endonuclease
superfamily: GIY-YIG endonuclease
family: GIY-YIG endonuclease
domain: Homing endonuclease I-TevI
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.91  E-value=8e-06  Score=52.26  Aligned_cols=32  Identities=34%  Similarity=0.543  Sum_probs=28.2

Q ss_pred             ccEEEEeEeCCCCCceEEEEeCCHHHHHHHHhc
Q 047362           48 SWSVYLIISTNPPIKTYVGTTTNFPRRLKQHNG   80 (109)
Q Consensus        48 ~yyVYIL~s~~~~~~lYiG~T~DL~rRl~qHn~   80 (109)
                      .--||+|.|...+ ++|||.|.||.+|+.+|..
T Consensus         2 ksGIY~i~n~~ng-k~YIG~t~nl~~R~~~h~~   33 (97)
T d1mk0a_           2 KSGIYQIKNTLNN-KVYVGSAKDFEKRWKRHFK   33 (97)
T ss_dssp             CCEEEEEEETTTC-CEEEEEESSHHHHHHHHHH
T ss_pred             CCEEEEEEECCCC-eEEEEEeCcHHHHHHHHHH
Confidence            3369999998877 8999999999999999963