Citrus Sinensis ID: 027663

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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
Protein Sequence
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT
Secondary Structure (PSIPRED)
cEEcccccEEEEEEEcccEEEEcccccccEEEEEEEccccEEEcEEccHHHHHHHHHHHcccccccccHHHHHHHHHHHHccEEEEEEEEEEEccEEEEEEEEEEcccccEEEEEEccHHHHHHHHHHccccEEEEHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cEEEccccEEEEEEcccccccccccccccEEEEEEcccccEEEEEEEccHHHHHHHHHHcccccccccHHHHHHHHHHHcccEEEEEEEEEccccEEEEEEEEEEcccEEEEEEEEccccHHHHHHHHccccEEEcHHHHHHcccEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
mikmrdgrhlrcvhnnpqgghlpdyaphpaIVLKmedgtglllPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTkvgnetecvsfdlrpsdainIAVRCKVPIqvnkylaysdgmrviesgklsthspgsdgllfteldkpsgqpcldtkefNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT
Flexible Loop (DISEMBL)
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKlgqlrakrnlrkft
Low Complexity Region (SEG)
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT
Disordered region (IsUnstruct)
********************HLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE**************LFT********PCLDTKEFNLVRNMLIAAVEERYRDAAQWRDK**************
Disordered Region (DISOPRED)
********HLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA*****I*RPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAY******************************************LVRNMLIAAVEERYRDAAQWRD*L*************
Disordered Region (DISEMBL)
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT
Disordered Region (DISPRO)
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIES***********************QPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRN*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT
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	220	2.2.26 [Sep-21-2011]
Q9FWS6	325	Bifunctional nuclease 1 O	yes	no	1.0	0.676	0.854	1e-113
Q93VH2	329	Bifunctional nuclease 2 O	no	no	1.0	0.668	0.822	1e-109
Q6YZM6	325	Bifunctional nuclease 2 O	yes	no	0.972	0.658	0.714	2e-90
Q09LL3	331	Bifunctional nuclease OS=	N/A	no	0.968	0.643	0.616	6e-77
Q5N8J3	331	Bifunctional nuclease 1 O	no	no	0.968	0.643	0.616	7e-77
B8A8D2	331	Bifunctional nuclease 1 O	N/A	no	0.968	0.643	0.616	3e-76
Q50604	164	Uncharacterized protein R	yes	no	0.513	0.689	0.225	0.0001

>sp|Q9FWS6|BBD1_ARATH Bifunctional nuclease 1 OS=Arabidopsis thaliana GN=BBD1 PE=2 SV=1

 Score =  406 bits (1043), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 188/220 (85%), Positives = 206/220 (93%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M+KMRDGR LRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct: 106 MVKMRDGRQLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 165

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVKEM++KMGYEVRLVRVTKRVHEAYFAQL+L+KVGN +ECVSFDLRPS
Sbjct: 166 NVQIARPTMYQVVKEMVDKMGYEVRLVRVTKRVHEAYFAQLFLSKVGNASECVSFDLRPS 225

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCK+PIQVNKYLAYSDGMRVIESGK+ST +P SDGLLFTE D+P+GQ CLDTK
Sbjct: 226 DAINIAVRCKIPIQVNKYLAYSDGMRVIESGKISTPAPASDGLLFTEQDRPNGQACLDTK 285

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EFN++  M+ A  EERY +AA+WRDKLGQ RAKRNLRK+T
Sbjct: 286 EFNILSKMMQAVDEERYDEAAEWRDKLGQFRAKRNLRKYT 325

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -

>sp|Q93VH2|BBD2_ARATH Bifunctional nuclease 2 OS=Arabidopsis thaliana GN=BBD2 PE=2 SV=1

 Score =  394 bits (1013), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 181/220 (82%), Positives = 206/220 (93%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M+KM+DGR LRCVHNNPQGG+LP+YAPH AIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct: 110 MVKMKDGRQLRCVHNNPQGGNLPNYAPHSAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 169

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVK+M++KMGYEVRLVRVT RVHEAYFA+LYL+KVG++++CVSFDLRPS
Sbjct: 170 NVQIARPTMYQVVKDMVDKMGYEVRLVRVTTRVHEAYFAELYLSKVGDKSDCVSFDLRPS 229

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVI+SGKLS  +P SDGLLFTELD+P+GQPC DTK
Sbjct: 230 DAINIAVRCKVPIQVNKYLAYSDGMRVIDSGKLSKQTPASDGLLFTELDRPNGQPCFDTK 289

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EF+LVRNM+ A  EERY +AA+WRDKLG+ +AKR LRK+T
Sbjct: 290 EFDLVRNMMQAVDEERYDEAAEWRDKLGKFQAKRKLRKYT 329

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|Q6YZM6|BBD2_ORYSJ Bifunctional nuclease 2 OS=Oryza sativa subsp. japonica GN=BBD2 PE=2 SV=1

 Score =  331 bits (849), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 153/214 (71%), Positives = 188/214 (87%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDG++LRCVHNN QG ++P+ AP PAIVL++EDG+  LLPIIVLEMPSVLLMAA+R
Sbjct: 108 VIKMRDGKNLRCVHNNSQGRNIPESAPQPAIVLRIEDGSETLLPIIVLEMPSVLLMAAIR 167

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NV IARPT+YQVVKEMI+KMGYEV+LVR+ KR+ EAY A+L+LTKVG+ TE ++FDLRPS
Sbjct: 168 NVHIARPTIYQVVKEMIDKMGYEVKLVRINKRIQEAYCAELFLTKVGDHTESITFDLRPS 227

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQV++ LAYSDG+R +E  +++  +  SDGLLFTELD+P GQPC++ +
Sbjct: 228 DAINIAVRCKVPIQVHRSLAYSDGIRSVEPARMAIAAGMSDGLLFTELDRPDGQPCVEAQ 287

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKR 214
           EF L+RNMLIAAVEERY+DAA WRDKL  LR+KR
Sbjct: 288 EFGLIRNMLIAAVEERYKDAATWRDKLMLLRSKR 321

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|Q09LL3|BBD_ORYMI Bifunctional nuclease OS=Oryza minuta GN=BBD PE=2 SV=1

 Score =  286 bits (733), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 132/214 (61%), Positives = 175/214 (81%), Gaps = 1/214 (0%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDG++LRCV NNP+   L D APH AIVLKMEDG+ LLLPIIV+E PS++L+AA+R
Sbjct: 115 VIKMRDGKNLRCVQNNPRVLRLRDSAPHHAIVLKMEDGSDLLLPIIVMETPSIMLLAALR 174

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           N++I RPT+Y VVKEM E+MGY VRLVR+T+ VH+AY+++LYL K+GNE E +S DL+PS
Sbjct: 175 NIRIPRPTIYNVVKEMTERMGYAVRLVRITEMVHDAYYSRLYLAKIGNEEETISLDLKPS 234

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIA RCKVPIQVN+ +AY++G++V++     ++   SD   +T LD+P  QPC + +
Sbjct: 235 DAINIAFRCKVPIQVNRRIAYNNGLKVVQPTPSESYV-SSDQFQYTRLDRPDDQPCFEAQ 293

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKR 214
           EF+LVRNML+AAVEERY+DAAQ+RD+L   RAK+
Sbjct: 294 EFDLVRNMLVAAVEERYKDAAQYRDQLFMFRAKK 327

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.

Oryza minuta (taxid: 63629)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|Q5N8J3|BBD1_ORYSJ Bifunctional nuclease 1 OS=Oryza sativa subsp. japonica GN=BBD1 PE=2 SV=1

 Score =  286 bits (732), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 132/214 (61%), Positives = 175/214 (81%), Gaps = 1/214 (0%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDG++LRCV NNP+   L D APH AIVLKMEDG+ LLLPIIV+E PS++L+AA+R
Sbjct: 115 VIKMRDGKNLRCVQNNPRVLRLRDSAPHHAIVLKMEDGSDLLLPIIVMETPSIMLLAALR 174

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           N++I RPT+Y VVKEM E+MGY VRLVR+T+ VH+AY+++LYL K+GNE E +S DL+PS
Sbjct: 175 NIRIPRPTIYNVVKEMTERMGYAVRLVRITEMVHDAYYSRLYLAKIGNEEETISLDLKPS 234

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIA RCKVPIQVN+ +AY++G++V++     ++   SD   +T LD+P  QPC + +
Sbjct: 235 DAINIAFRCKVPIQVNRRIAYNNGLKVVQPTPSESYV-SSDQFQYTRLDRPDDQPCFEAQ 293

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKR 214
           EF+LVRNML+AAVEERY+DAAQ+RD+L   RAK+
Sbjct: 294 EFDLVRNMLVAAVEERYKDAAQYRDQLFMFRAKK 327

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|B8A8D2|BBD1_ORYSI Bifunctional nuclease 1 OS=Oryza sativa subsp. indica GN=BBD1 PE=3 SV=1

 Score =  284 bits (727), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 132/214 (61%), Positives = 174/214 (81%), Gaps = 1/214 (0%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDG++LRCV NNP+   L D APH AIVLKMEDG+ LLLPIIV+E PS++L+AA+R
Sbjct: 115 VIKMRDGKNLRCVQNNPRVLRLRDSAPHHAIVLKMEDGSDLLLPIIVMETPSIMLLAALR 174

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           N++I RPT+Y VVKEM E+MGY VRLVR+T+ VH+AY+++LYL K+GNE E +S DL+PS
Sbjct: 175 NIRIPRPTIYNVVKEMTERMGYAVRLVRITEMVHDAYYSRLYLAKIGNEEETISLDLKPS 234

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIA RCKVPIQVN+ +AY++G++V++     ++   SD    T LD+P  QPC + +
Sbjct: 235 DAINIAFRCKVPIQVNRRIAYNNGLKVVQPTPSESYV-SSDQFQCTRLDRPDDQPCFEAQ 293

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKR 214
           EF+LVRNML+AAVEERY+DAAQ+RD+L   RAK+
Sbjct: 294 EFDLVRNMLVAAVEERYKDAAQYRDQLFMFRAKK 327

Bifunctional nuclease with both RNase and DNase activites. Involved in basal defense response. Participates in abscisic acid-derived callose deposition following infection by a necrotrophic pathogen.

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 1

EC: .

EC: -

EC: .

EC: -

>sp|Q50604|Y1829_MYCTU Uncharacterized protein Rv1829/MT1877 OS=Mycobacterium tuberculosis GN=Rv1829 PE=4 SV=2

 Score = 46.6 bits (109), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/120 (22%), Positives = 59/120 (49%), Gaps = 7/120 (5%)

Query: 28  HPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLV 87
            P ++L+  +G   L PI + +  +  +    + V+  RP  + +++++I  +G+ ++ V
Sbjct: 17  QPVLLLREANGDRYL-PIWIGQSEAAAIALEQQGVEPPRPLTHDLIRDLIAALGHSLKEV 75

Query: 88  RVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRV 147
           R+       ++A L   +       +    RPSD++ IA+R  VPI V + +    G+ +
Sbjct: 76  RIVDLQEGTFYADLIFDR------NIKVSARPSDSVAIALRVGVPIYVEEAVLAQAGLLI 129

Mycobacterium tuberculosis (taxid: 1773)

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	220
255538728	327	conserved hypothetical protein [Ricinus	0.995	0.669	0.922	1e-118
224062099	326	predicted protein [Populus trichocarpa]	0.995	0.671	0.895	1e-115
359492154	327	PREDICTED: uncharacterized protein LOC10	0.977	0.657	0.897	1e-112
302142539	355	unnamed protein product [Vitis vinifera]	0.977	0.605	0.897	1e-112
297842281	324	hypothetical protein ARALYDRAFT_476684 [	1.0	0.679	0.859	1e-111
15222221	325	bifunctional nuclease in basal defense r	1.0	0.676	0.854	1e-111
449511603	327	PREDICTED: bifunctional nuclease 1-like	0.981	0.660	0.879	1e-111
449460235	327	PREDICTED: bifunctional nuclease 1-like	0.981	0.660	0.875	1e-110
224085706	328	predicted protein [Populus trichocarpa]	0.986	0.661	0.873	1e-110
297850356	326	wound-responsive family protein [Arabido	1.0	0.674	0.831	1e-108

>gi|255538728|ref|XP_002510429.1| conserved hypothetical protein [Ricinus communis] gi|223551130|gb|EEF52616.1| conserved hypothetical protein [Ricinus communis]

 Score =  429 bits (1102), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 203/220 (92%), Positives = 214/220 (97%), Gaps = 1/220 (0%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           MIKMRDGRH+RCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 109 MIKMRDGRHVRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 168

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNET+CVSFDLRPS
Sbjct: 169 NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETQCVSFDLRPS 228

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVIESGK+ THSPGSDGLLFTELD+P+GQPCLDTK
Sbjct: 229 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKI-THSPGSDGLLFTELDRPTGQPCLDTK 287

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EFNLV N++ A VEERY+DAAQWRD LGQ RAKRNL+K+T
Sbjct: 288 EFNLVSNLMNAVVEERYQDAAQWRDMLGQFRAKRNLKKYT 327

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224062099|ref|XP_002300754.1| predicted protein [Populus trichocarpa] gi|222842480|gb|EEE80027.1| predicted protein [Populus trichocarpa]

 Score =  421 bits (1081), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 197/220 (89%), Positives = 210/220 (95%), Gaps = 1/220 (0%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 108 VIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 167

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVK+M+EKMG+EV+LVRVTKRVHEAYFAQLYLTK+GNETECVSFDLRPS
Sbjct: 168 NVQIARPTMYQVVKDMVEKMGFEVKLVRVTKRVHEAYFAQLYLTKIGNETECVSFDLRPS 227

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVIESGK    SP SDG+LFTELD+P+GQPCLDTK
Sbjct: 228 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGK-PIQSPASDGILFTELDRPTGQPCLDTK 286

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EFNLVRNM  AA EERY DAAQWRDKLGQ RAKRNL+K+T
Sbjct: 287 EFNLVRNMFTAAFEERYGDAAQWRDKLGQFRAKRNLKKYT 326

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359492154|ref|XP_003634371.1| PREDICTED: uncharacterized protein LOC100855103 [Vitis vinifera]

 Score =  409 bits (1051), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 193/215 (89%), Positives = 205/215 (95%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           MIKMRDGRHLRCVHNNPQGGH+PDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 111 MIKMRDGRHLRCVHNNPQGGHMPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 170

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPTLYQV+KEMI+KMGY V+LVRVTKRVHEAYFAQLYLTKVGNE E VSFDLRPS
Sbjct: 171 NVQIARPTLYQVMKEMIDKMGYAVKLVRVTKRVHEAYFAQLYLTKVGNEKESVSFDLRPS 230

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVIES K+S  +  SDGLLFTELD+PSGQPC++TK
Sbjct: 231 DAINIAVRCKVPIQVNKYLAYSDGMRVIESAKVSVQASSSDGLLFTELDRPSGQPCIETK 290

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRN 215
           EF+LVRNMLIAAVEERYRDAAQWRDKL Q R+KRN
Sbjct: 291 EFDLVRNMLIAAVEERYRDAAQWRDKLTQFRSKRN 325

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302142539|emb|CBI19742.3| unnamed protein product [Vitis vinifera]

 Score =  408 bits (1049), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 193/215 (89%), Positives = 205/215 (95%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           MIKMRDGRHLRCVHNNPQGGH+PDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 139 MIKMRDGRHLRCVHNNPQGGHMPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 198

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPTLYQV+KEMI+KMGY V+LVRVTKRVHEAYFAQLYLTKVGNE E VSFDLRPS
Sbjct: 199 NVQIARPTLYQVMKEMIDKMGYAVKLVRVTKRVHEAYFAQLYLTKVGNEKESVSFDLRPS 258

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVIES K+S  +  SDGLLFTELD+PSGQPC++TK
Sbjct: 259 DAINIAVRCKVPIQVNKYLAYSDGMRVIESAKVSVQASSSDGLLFTELDRPSGQPCIETK 318

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRN 215
           EF+LVRNMLIAAVEERYRDAAQWRDKL Q R+KRN
Sbjct: 319 EFDLVRNMLIAAVEERYRDAAQWRDKLTQFRSKRN 353

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297842281|ref|XP_002889022.1| hypothetical protein ARALYDRAFT_476684 [Arabidopsis lyrata subsp. lyrata] gi|297334863|gb|EFH65281.1| hypothetical protein ARALYDRAFT_476684 [Arabidopsis lyrata subsp. lyrata]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 189/220 (85%), Positives = 206/220 (93%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M+KMRDGR LRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct: 105 MVKMRDGRQLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 164

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVKEM++KMGYEVRLVRVTKRVHEAYFAQLYL+KVGN +ECVSFDLRPS
Sbjct: 165 NVQIARPTMYQVVKEMVDKMGYEVRLVRVTKRVHEAYFAQLYLSKVGNASECVSFDLRPS 224

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCK+PIQVNKYLAYSDGMRVIESGK+ST +P SDGLLFTE D+P+GQ CLDTK
Sbjct: 225 DAINIAVRCKIPIQVNKYLAYSDGMRVIESGKISTPTPASDGLLFTEQDRPNGQACLDTK 284

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EFN++  M+ A  EERY +AA+WRDKLGQ RAKRNLRK+T
Sbjct: 285 EFNILSKMMQAVDEERYDEAAEWRDKLGQFRAKRNLRKYT 324

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222221|ref|NP_177671.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana] gi|30699096|ref|NP_849890.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana] gi|30699098|ref|NP_849891.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana] gi|75172895|sp|Q9FWS6.1|BBD1_ARATH RecName: Full=Bifunctional nuclease 1; Short=AtBBD1 gi|10120446|gb|AAG13071.1|AC023754_9 Unknown protein [Arabidopsis thaliana] gi|15809929|gb|AAL06892.1| At1g75380/F1B16_15 [Arabidopsis thaliana] gi|17978881|gb|AAL47412.1| At1g75380/F1B16_15 [Arabidopsis thaliana] gi|21593016|gb|AAM64965.1| wound-responsive protein, putative [Arabidopsis thaliana] gi|332197588|gb|AEE35709.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana] gi|332197589|gb|AEE35710.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana] gi|332197590|gb|AEE35711.1| bifunctional nuclease in basal defense response 1 [Arabidopsis thaliana]

 Score =  406 bits (1043), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 188/220 (85%), Positives = 206/220 (93%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M+KMRDGR LRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct: 106 MVKMRDGRQLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 165

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVKEM++KMGYEVRLVRVTKRVHEAYFAQL+L+KVGN +ECVSFDLRPS
Sbjct: 166 NVQIARPTMYQVVKEMVDKMGYEVRLVRVTKRVHEAYFAQLFLSKVGNASECVSFDLRPS 225

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCK+PIQVNKYLAYSDGMRVIESGK+ST +P SDGLLFTE D+P+GQ CLDTK
Sbjct: 226 DAINIAVRCKIPIQVNKYLAYSDGMRVIESGKISTPAPASDGLLFTEQDRPNGQACLDTK 285

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EFN++  M+ A  EERY +AA+WRDKLGQ RAKRNLRK+T
Sbjct: 286 EFNILSKMMQAVDEERYDEAAEWRDKLGQFRAKRNLRKYT 325

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449511603|ref|XP_004164003.1| PREDICTED: bifunctional nuclease 1-like [Cucumis sativus]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 190/216 (87%), Positives = 207/216 (95%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDGRHLRCVHNNP GGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 111 VIKMRDGRHLRCVHNNPHGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 170

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NV IARPT+YQVVKEMI+KMGYEV+LVRVTKRVHEAYFAQLYL+K+G ET+C+SFDLRPS
Sbjct: 171 NVPIARPTMYQVVKEMIDKMGYEVKLVRVTKRVHEAYFAQLYLSKIGCETDCLSFDLRPS 230

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRC+VPIQVNKYLAYSDGMRV+ESGKLST +  +DGLLFTELD+PSGQPC++ K
Sbjct: 231 DAINIAVRCQVPIQVNKYLAYSDGMRVVESGKLSTQALATDGLLFTELDRPSGQPCVEAK 290

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNL 216
           EFNLVRNMLIAAVEERYRDAAQWRDKL  LRA+RNL
Sbjct: 291 EFNLVRNMLIAAVEERYRDAAQWRDKLNLLRARRNL 326

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449460235|ref|XP_004147851.1| PREDICTED: bifunctional nuclease 1-like [Cucumis sativus]

 Score =  404 bits (1039), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 189/216 (87%), Positives = 207/216 (95%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDGRHLRCVHNNP GGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 111 VIKMRDGRHLRCVHNNPHGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 170

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NV IARPT+YQVVKEMI+KMGYEV+LVRVTKRVHEAYFAQLYL+K+G ET+C+SFDLRPS
Sbjct: 171 NVPIARPTMYQVVKEMIDKMGYEVKLVRVTKRVHEAYFAQLYLSKIGCETDCLSFDLRPS 230

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRC+VPIQVNKYLA+SDGMRV+ESGKLST +  +DGLLFTELD+PSGQPC++ K
Sbjct: 231 DAINIAVRCQVPIQVNKYLAFSDGMRVVESGKLSTQALATDGLLFTELDRPSGQPCVEAK 290

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNL 216
           EFNLVRNMLIAAVEERYRDAAQWRDKL  LRA+RNL
Sbjct: 291 EFNLVRNMLIAAVEERYRDAAQWRDKLNLLRARRNL 326

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224085706|ref|XP_002307674.1| predicted protein [Populus trichocarpa] gi|222857123|gb|EEE94670.1| predicted protein [Populus trichocarpa]

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 193/221 (87%), Positives = 208/221 (94%), Gaps = 4/221 (1%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           +IKMRDGRHLRCVHNNPQGGHLPD APHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAA+R
Sbjct: 111 VIKMRDGRHLRCVHNNPQGGHLPDNAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAVR 170

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVKEM+EKMGYEV+LVRVTKRVHEAYFAQLYLTK+GNETECVSFDLRPS
Sbjct: 171 NVQIARPTMYQVVKEMVEKMGYEVKLVRVTKRVHEAYFAQLYLTKIGNETECVSFDLRPS 230

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHS-PGSDGLLFTELDKPSGQPCLDT 179
           DAINIAVRCKVPIQVNKYLAYSDGMRV+    L  +S P  +GLLFTELD+P+GQPCLDT
Sbjct: 231 DAINIAVRCKVPIQVNKYLAYSDGMRVMN---LKANSVPCFNGLLFTELDRPTGQPCLDT 287

Query: 180 KEFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           KEF+LVRNML AA+EERY DAAQWRDKLGQ RAKRNL+K+T
Sbjct: 288 KEFDLVRNMLTAAIEERYGDAAQWRDKLGQFRAKRNLKKYT 328

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850356|ref|XP_002893059.1| wound-responsive family protein [Arabidopsis lyrata subsp. lyrata] gi|297338901|gb|EFH69318.1| wound-responsive family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 183/220 (83%), Positives = 205/220 (93%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M+KM+DGR LRCVHNNPQGG+LP+YAPH AIVLKMEDGTGLLLPIIVLEMPSVLLMAA+ 
Sbjct: 107 MVKMKDGRQLRCVHNNPQGGNLPNYAPHSAIVLKMEDGTGLLLPIIVLEMPSVLLMAAIT 166

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
           NVQIARPT+YQVVKEM++KMGYEVRLVRVT RVHEAYFA+LYL+KVGN+ ECVSFDLRPS
Sbjct: 167 NVQIARPTMYQVVKEMVDKMGYEVRLVRVTTRVHEAYFAELYLSKVGNKLECVSFDLRPS 226

Query: 121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
           DAINIAVRCKVPIQVNKYLAYSDGMRVI+SGKLS  +P SDGLLFTELD+P+GQPC DTK
Sbjct: 227 DAINIAVRCKVPIQVNKYLAYSDGMRVIDSGKLSKQTPASDGLLFTELDRPNGQPCFDTK 286

Query: 181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
           EF+L+RNM+ A  EERY +AA+WRDKLGQ +AKR LRK+T
Sbjct: 287 EFDLLRNMMQAVDEERYDEAAEWRDKLGQFQAKRKLRKYT 326

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	220
TAIR|locus:2018422	325	BBD1 "AT1G75380" [Arabidopsis	1.0	0.676	0.854	7.9e-101
TAIR|locus:2013164	329	BBD2 "bifunctional nuclease in	1.0	0.668	0.822	2.5e-97
TAIR|locus:2156842	340	AT5G66050 [Arabidopsis thalian	0.859	0.555	0.370	2.2e-25
UNIPROTKB|Q50604	164	MT1877 "Uncharacterized protei	0.622	0.835	0.251	1.5e-05

TAIR|locus:2018422 BBD1 "AT1G75380" [Arabidopsis thaliana (taxid:3702)]

 Score = 1000 (357.1 bits), Expect = 7.9e-101, P = 7.9e-101
 Identities = 188/220 (85%), Positives = 206/220 (93%)

Query:     1 MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
             M+KMRDGR LRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct:   106 MVKMRDGRQLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 165

Query:    61 NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
             NVQIARPT+YQVVKEM++KMGYEVRLVRVTKRVHEAYFAQL+L+KVGN +ECVSFDLRPS
Sbjct:   166 NVQIARPTMYQVVKEMVDKMGYEVRLVRVTKRVHEAYFAQLFLSKVGNASECVSFDLRPS 225

Query:   121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
             DAINIAVRCK+PIQVNKYLAYSDGMRVIESGK+ST +P SDGLLFTE D+P+GQ CLDTK
Sbjct:   226 DAINIAVRCKIPIQVNKYLAYSDGMRVIESGKISTPAPASDGLLFTEQDRPNGQACLDTK 285

Query:   181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
             EFN++  M+ A  EERY +AA+WRDKLGQ RAKRNLRK+T
Sbjct:   286 EFNILSKMMQAVDEERYDEAAEWRDKLGQFRAKRNLRKYT 325

GO:0004518 "nuclease activity" evidence=IDA

GO:0050832 "defense response to fungus" evidence=IMP

GO:0031063 "regulation of histone deacetylation" evidence=IGI

GO:0043565 "sequence-specific DNA binding" evidence=IDA;IPI

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IGI

TAIR|locus:2013164 BBD2 "bifunctional nuclease in basal defense response 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 967 (345.5 bits), Expect = 2.5e-97, P = 2.5e-97
 Identities = 181/220 (82%), Positives = 206/220 (93%)

Query:     1 MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
             M+KM+DGR LRCVHNNPQGG+LP+YAPH AIVLKMEDGTGLLLPIIVLEMPSVLLMAAM 
Sbjct:   110 MVKMKDGRQLRCVHNNPQGGNLPNYAPHSAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMT 169

Query:    61 NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPS 120
             NVQIARPT+YQVVK+M++KMGYEVRLVRVT RVHEAYFA+LYL+KVG++++CVSFDLRPS
Sbjct:   170 NVQIARPTMYQVVKDMVDKMGYEVRLVRVTTRVHEAYFAELYLSKVGDKSDCVSFDLRPS 229

Query:   121 DAINIAVRCKVPIQVNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTK 180
             DAINIAVRCKVPIQVNKYLAYSDGMRVI+SGKLS  +P SDGLLFTELD+P+GQPC DTK
Sbjct:   230 DAINIAVRCKVPIQVNKYLAYSDGMRVIDSGKLSKQTPASDGLLFTELDRPNGQPCFDTK 289

Query:   181 EFNLVRNMLIAAVEERYRDAAQWRDKLGQLRAKRNLRKFT 220
             EF+LVRNM+ A  EERY +AA+WRDKLG+ +AKR LRK+T
Sbjct:   290 EFDLVRNMMQAVDEERYDEAAEWRDKLGKFQAKRKLRKYT 329

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0006289 "nucleotide-excision repair" evidence=IEA

GO:0009611 "response to wounding" evidence=ISS

TAIR|locus:2156842 AT5G66050 [Arabidopsis thaliana (taxid:3702)]

 Score = 288 (106.4 bits), Expect = 2.2e-25, P = 2.2e-25
 Identities = 73/197 (37%), Positives = 110/197 (55%)

Query:    17 PQG-GHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMP-SVLLMAAMRNVQIARPTLYQVVK 74
             P G G L  +   P I LK+      LLP+IV +     LL   ++      P  +Q V 
Sbjct:   132 PIGLGFLRQFK-QPTIFLKISCDGDYLLPVIVGDAAVEKLLDVPLQGHTEECPDQFQFVS 190

Query:    75 EMIEKMGYEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQ 134
              +++K+GYEV++V++T R+   Y+A L L K G + E +  D RPSDAIN+A  C+ PI 
Sbjct:   191 AVVDKLGYEVKMVKLTGRIVNTYYASLCLGKPG-DIEAICIDSRPSDAINVARACQAPIY 249

Query:   135 VNKYLAYSDGMRVIESGKLSTHSPGSDGLLFTELDKPSGQPCLDTKEFNLVRNMLIAAVE 194
             VNK +   + +++   G+  +  P  + +L +  D P   P   ++E  LVRNM +A+ E
Sbjct:   250 VNKAIVLEEAIKIGYGGRPQSAKPVFNVILDSAPDGPD--PL--SEELKLVRNMDLASKE 305

Query:   195 ERYRDAAQWRDKLGQLR 211
             ERY DAA WRD+L  L+
Sbjct:   306 ERYIDAAMWRDRLKNLQ 322

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0006289 "nucleotide-excision repair" evidence=IEA

UNIPROTKB|Q50604 MT1877 "Uncharacterized protein Rv1829/MT1877" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 113 (44.8 bits), Expect = 1.5e-05, P = 1.5e-05
 Identities = 37/147 (25%), Positives = 73/147 (49%)

Query:    29 PAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVR 88
             P ++L+  +G   L PI + +  +  +    + V+  RP  + +++++I  +G+ ++ VR
Sbjct:    18 PVLLLREANGDRYL-PIWIGQSEAAAIALEQQGVEPPRPLTHDLIRDLIAALGHSLKEVR 76

Query:    89 VTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVI 148
             +       ++A L   +  N    +    RPSD++ IA+R  VPI V + +    G+ + 
Sbjct:    77 IVDLQEGTFYADLIFDR--N----IKVSARPSDSVAIALRVGVPIYVEEAVLAQAGLLIP 130

Query:   149 -ESGKLSTHSPGSDGL-LFTE-LDKPS 172
              ES + +T +   D +  F E LD  S
Sbjct:   131 DESDEEATTAVREDEVEKFKEFLDSVS 157


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        0.322   0.138   0.406    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      220       220   0.00094  112 3  11 22  0.49    32
                                                     32  0.40    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:  4
  No. of states in DFA:  598 (64 KB)
  Total size of DFA:  170 KB (2100 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:  20.84u 0.11s 20.95t   Elapsed:  00:00:01
  Total cpu time:  20.84u 0.11s 20.95t   Elapsed:  00:00:01
  Start:  Sat May 11 03:33:31 2013   End:  Sat May 11 03:33:32 2013

GO:0005618 "cell wall" 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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FWS6	BBD1_ARATH	3, ., 1, ., -, ., -	0.8545	1.0	0.6769	yes	no
Q6YZM6	BBD2_ORYSJ	3, ., 1, ., -, ., -	0.7149	0.9727	0.6584	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.0003027102 hypothetical protein (326 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	220
pfam02577	132	pfam02577, DNase-RNase, Bifunctional nuclease	7e-17
COG1259	151	COG1259, COG1259, Uncharacterized conserved protei	5e-14

>gnl|CDD|217117 pfam02577, DNase-RNase, Bifunctional nuclease

 Score = 73.3 bits (181), Expect = 7e-17
 Identities = 34/112 (30%), Positives = 59/112 (52%), Gaps = 5/112 (4%)

Query: 26  APHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVR 85
           +  P ++L+ EDG   +LPI +    +  +  A+  V+  RP  + ++K+++E +G +V 
Sbjct: 12  SGAPVVLLRDEDG-ERVLPIWIGPAEAQAIALALEGVEPPRPLTHDLLKDVLEALGAKVE 70

Query: 86  LVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNK 137
            V +       ++A+L L   G E      D RPSDAI +A+R   PI V +
Sbjct: 71  RVVIDDLKDGTFYARLVLRDGGEEE----IDARPSDAIALALRTGAPIYVTE 118

This family is a bifunctional nuclease, with both DNase and RNase activity. It forms a wedge-shaped dimer, with each monomer being triangular in shape. A large groove at the thick end of the wedge contains a possible active site. Length = 132

>gnl|CDD|224179 COG1259, COG1259, Uncharacterized conserved protein [Function unknown]

 Score = 66.6 bits (163), Expect = 5e-14
 Identities = 33/116 (28%), Positives = 57/116 (49%), Gaps = 5/116 (4%)

Query: 24  DYAPH--PAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMG 81
                  P +VL +E G   +LPI +    ++ +  A+  V+  RP  + ++ E+ E++G
Sbjct: 13  FVPVSSFPTVVLLLEGGDNRVLPIYIGASEALAIAKALEGVEPPRPLTHDLLVEIFEELG 72

Query: 82  YEVRLVRVTKRVHEAYFAQLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNK 137
             V  V +   +   Y+A L L +   + +    D RPSDAI +A+R   PI V +
Sbjct: 73  ARVEKVVIDDLIDNTYYATLILEQDDGKIQ---IDARPSDAIALALRVGAPIYVAE 125

Length = 151

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	220
PF02577	135	DNase-RNase: Bifunctional nuclease; InterPro: IPR0	100.0
COG1259	151	Uncharacterized conserved protein [Function unknow	100.0
PF02151	36	UVR: UvrB/uvrC motif; InterPro: IPR001943 During t	98.41
COG3880	176	Modulator of heat shock repressor CtsR, McsA [Sign	98.38
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	95.32
PRK05298	652	excinuclease ABC subunit B; Provisional	94.67
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	94.64
PRK00558	598	uvrC excinuclease ABC subunit C; Validated	94.38
PRK07883	557	hypothetical protein; Validated	93.97
PRK12306	519	uvrC excinuclease ABC subunit C; Reviewed	93.44
PRK14666	694	uvrC excinuclease ABC subunit C; Provisional	92.99
TIGR00194	574	uvrC excinuclease ABC, C subunit. This family cons	92.83
PRK14668	577	uvrC excinuclease ABC subunit C; Provisional	92.46
PRK14667	567	uvrC excinuclease ABC subunit C; Provisional	92.44
PRK14672	691	uvrC excinuclease ABC subunit C; Provisional	92.44
PRK14669	624	uvrC excinuclease ABC subunit C; Provisional	92.44
PRK14671	621	uvrC excinuclease ABC subunit C; Provisional	92.28
PRK14670	574	uvrC excinuclease ABC subunit C; Provisional	92.09
COG0322	581	UvrC Nuclease subunit of the excinuclease complex	90.94

>PF02577 DNase-RNase: Bifunctional nuclease; InterPro: IPR003729 This entry describes proteins of unknown function

Probab=100.00  E-value=2.1e-38  Score=255.19  Aligned_cols=126  Identities=29%  Similarity=0.470  Sum_probs=106.4

Q ss_pred             ccCCCCCCcEEEEEEeCCCceEEEEEEccHHHHHHHHHhccCCCCCCChHHHHHHHHHHhCCeEeEEEEEeeECCEEEEE
Q 027663           21 HLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQ  100 (220)
Q Consensus        21 ~l~~~~~~pvlvL~~~~~~~r~LPI~Ig~~eA~aI~~~l~~~~~~RPlThDLl~~vl~~lg~~v~~V~I~~~~dGvf~A~  100 (220)
                      .+++.++.|+++|++++++ +.||||||..||.+|+.++++..++||+|||||.++++++|.++.+|+|++++||+|||+
T Consensus         7 ~~~~~~~~~vvlL~~~~~~-~~lpI~i~~~ea~~i~~~~~~~~~~RP~thdLl~~~l~~lg~~v~~V~I~~~~dg~f~A~   85 (135)
T PF02577_consen    7 SVDEPSGQPVVLLREEDGD-RVLPIWIGAFEAQAIALALEGEKPPRPLTHDLLSDLLEALGAEVERVVIDDLEDGVFYAR   85 (135)
T ss_dssp             EEETTTTEEEEEEEETTSS-EEEEEE--HHHHHHHHHHHCT---SS--HHHHHHHHHHHTTEEEEEEEEEEEETTEEEEE
T ss_pred             EEcCCCCceEEEEEEcCCC-EEEEEEECHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHcCCEEEEEEEEEEECCEEEEE
Confidence            4566678999999999877 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhhhhcCeeeeec
Q 027663          101 LYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIES  150 (220)
Q Consensus       101 L~l~~~~~~~~~~~iDaRPSDAIaLAlr~~~PIyV~e~Vl~~~~i~~~~~  150 (220)
                      |++.+++   ++.++||||||||+||+++++||||+++|++++|+++..+
T Consensus        86 L~l~~~~---~~~~id~RpSDAiaLAl~~~~PI~v~~~vl~~~~~~~~~~  132 (135)
T PF02577_consen   86 LVLRQGG---EEIEIDARPSDAIALALRFGAPIYVSEEVLDEAGVPVEEE  132 (135)
T ss_dssp             EEEEETT---TEEEEEE-HHHHHHHHHHHT--EEEEHHHHHHH-EE--HH
T ss_pred             EEEecCC---EEEEEECcHhHHHHHHHHhCCCEEEeHHHHhhcCCCCchh
Confidence            9998776   7899999999999999999999999999999999998743

The structure has been determined for one member of this group, the hypothetical protein TM0160 from Thermotoga maritima, which was found to consist of a duplication of two beta(3)-alpha(2) structural repeats, forming a single barrel-like beta-sheet [].; PDB: 1SJ5_A 1VJL_A.

>COG1259 Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=1.7e-36  Score=247.24  Aligned_cols=127  Identities=26%  Similarity=0.431  Sum_probs=117.8

Q ss_pred             CccCCCCCCcEEEEEEeCCCceEEEEEEccHHHHHHHHHhccCCCCCCChHHHHHHHHHHhCCeEeEEEEEeeECCEEEE
Q 027663           20 GHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFA   99 (220)
Q Consensus        20 g~l~~~~~~pvlvL~~~~~~~r~LPI~Ig~~eA~aI~~~l~~~~~~RPlThDLl~~vl~~lg~~v~~V~I~~~~dGvf~A   99 (220)
                      -++.+..+.|++++...+++++.||||||..||.+|+.++++..|+||+||||+.++++.++.++.+|+|++++||||||
T Consensus        11 i~~~~~~~~~~~v~~~~~~~~~~lPI~Ig~~ea~si~~~l~~~~p~RP~tHdll~~i~~~l~~~v~kVvI~d~~d~tyyA   90 (151)
T COG1259          11 IFFVPVSSFPTVVLLLEGGDNRVLPIYIGASEALAIAKALEGVEPPRPLTHDLLVEIFEELGARVEKVVIDDLIDNTYYA   90 (151)
T ss_pred             EEEecccCCceEEEEEEcCCCeEEEEEEeHHHHHHHHHhhccCCCCCCcHHHHHHHHHHHhCCcEEEEEEEEeccCeEEE
Confidence            35667788997777777777789999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhhhhcCeeeee
Q 027663          100 QLYLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE  149 (220)
Q Consensus       100 ~L~l~~~~~~~~~~~iDaRPSDAIaLAlr~~~PIyV~e~Vl~~~~i~~~~  149 (220)
                      +|++++++   ....+||||||||+||+|.|+||||.++|+++++++..+
T Consensus        91 ~L~~~~~~---~~~~iDaRPSDaI~LAlr~~~PI~V~e~v~~~a~~~~~~  137 (151)
T COG1259          91 TLILEQDD---GKIQIDARPSDAIALALRVGAPIYVAEEVLDEAEIEIED  137 (151)
T ss_pred             EEEEEcCC---ceEEEecccchHHHHHHHhCCCEEEehhhhhhhcCcCcc
Confidence            99999987   569999999999999999999999999999999888764

>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 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=98.41  E-value=5.8e-07  Score=56.91  Aligned_cols=34  Identities=29%  Similarity=0.449  Sum_probs=29.5

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK  213 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~  213 (220)
                      ..+..|+..|..|++ ++||+||.|||+|..++++
T Consensus         2 ~~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~q   36 (36)
T PF02151_consen    2 KLIKELEEKMEEAVENEDFEKAARLRDQIKALKKQ   36 (36)
T ss_dssp             HHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHcC
Confidence            356789999999998 9999999999999999864

UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.

>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]

Probab=98.38  E-value=4.5e-07  Score=75.61  Aligned_cols=38  Identities=26%  Similarity=0.423  Sum_probs=34.7

Q ss_pred             cchhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          177 LDTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       177 ~~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      ..+.++.+|++.|+++|+ |+||+||.|||+|+.||.+.
T Consensus       133 ~~~~~I~~L~e~Lq~~i~~EefEeAA~iRDqIr~Lk~k~  171 (176)
T COG3880         133 NPKRKIIALKEALQDLIEREEFEEAAVIRDQIRALKAKN  171 (176)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            456889999999999998 99999999999999999764

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

Probab=95.32  E-value=0.026  Score=55.34  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=31.1

Q ss_pred             hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          179 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       179 ~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .+.++.|+++|.+|.+ -+||+||++||+|++|++..
T Consensus       623 ~~~I~~Le~~M~~aA~~l~FE~Aa~lRD~i~~L~~~~  659 (663)
T COG0556         623 EKLIKKLEKEMKEAAKNLEFEEAARLRDEIKELKEEL  659 (663)
T ss_pred             HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHh
Confidence            4567888888888887 99999999999999998754

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=94.67  E-value=0.049  Score=54.34  Aligned_cols=35  Identities=20%  Similarity=0.353  Sum_probs=30.8

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      ..+..|+++|++|.+ .+||+||++||+|+.|++..
T Consensus       613 ~~~~~l~~~M~~aa~~l~fE~Aa~~Rd~i~~l~~~~  648 (652)
T PRK05298        613 KLIKELEKQMKEAAKNLEFEEAARLRDEIKELKEEL  648 (652)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHh
Confidence            456779999999998 99999999999999998654

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=94.64  E-value=0.032  Score=55.82  Aligned_cols=32  Identities=22%  Similarity=0.353  Sum_probs=27.9

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHH
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLR  211 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~  211 (220)
                      ..++.|+++|++|.+ .+||+||++||+|+.|+
T Consensus       623 ~~i~~l~~~M~~aa~~l~FE~Aa~~RD~i~~L~  655 (655)
T TIGR00631       623 KLIKQLEKEMKQAARNLEFEEAARLRDEILELK  655 (655)
T ss_pred             HHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            445778999999988 99999999999999874

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)

>PRK00558 uvrC excinuclease ABC subunit C; Validated

Probab=94.38  E-value=0.057  Score=53.49  Aligned_cols=35  Identities=23%  Similarity=0.379  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-++.|++.|++|.+ .+||+||.+||+|..++.-.
T Consensus       202 ~~i~~L~~~M~~aa~~l~FE~Aa~~RD~i~aL~~~~  237 (598)
T PRK00558        202 EVLKELEEKMEEASENLEFERAARYRDQIQALRRVQ  237 (598)
T ss_pred             HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHH
Confidence            345779999999987 99999999999999998654

>PRK07883 hypothetical protein; Validated

Probab=93.97  E-value=0.08  Score=51.99  Aligned_cols=35  Identities=26%  Similarity=0.355  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-++.|+++|++|.+ .+||+||++||+|..++.-.
T Consensus       406 ~~~~~l~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~  441 (557)
T PRK07883        406 AVLAALRARIDRLAAAERFEEAARLRDRLAALLRAL  441 (557)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            345778999999987 99999999999999998643

>PRK12306 uvrC excinuclease ABC subunit C; Reviewed

Probab=93.44  E-value=0.11  Score=50.71  Aligned_cols=35  Identities=9%  Similarity=0.234  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|.+ .+||+||++||.|..++.-.
T Consensus       192 ~~~~~L~~~M~~aa~~l~FE~Aa~~RD~l~~l~~~~  227 (519)
T PRK12306        192 ELIEKLEEEMAEKAKNQQFERALVIRDEINAIENLQ  227 (519)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            345778889999987 99999999999999998533

>PRK14666 uvrC excinuclease ABC subunit C; Provisional

Probab=92.99  E-value=0.13  Score=51.81  Aligned_cols=35  Identities=23%  Similarity=0.284  Sum_probs=30.0

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|.+ .+||+||++||.|+.++.-.
T Consensus       201 ~l~~~L~~~M~~AAe~l~FE~AA~lRD~i~aL~~~~  236 (694)
T PRK14666        201 ELVDALRTEMEAASEALEFERAAVLRDQIRAVERTV  236 (694)
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence            345778999999997 99999999999999998644

>TIGR00194 uvrC excinuclease ABC, C subunit

Probab=92.83  E-value=0.16  Score=50.23  Aligned_cols=34  Identities=21%  Similarity=0.318  Sum_probs=29.1

Q ss_pred             hHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          181 EFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       181 ~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      -+..|++.|++|.+ .+||+||++||.|+.++.-.
T Consensus       195 ~~~~L~~~M~~aa~~l~FE~Aa~~Rd~i~~l~~~~  229 (574)
T TIGR00194       195 VIKELEQKMEKASENLEFEEAARIRDQIAAVRELN  229 (574)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            35678888888887 99999999999999998543

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.

>PRK14668 uvrC excinuclease ABC subunit C; Provisional

Probab=92.46  E-value=0.18  Score=49.85  Aligned_cols=34  Identities=26%  Similarity=0.348  Sum_probs=29.3

Q ss_pred             hHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          181 EFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       181 ~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      -++.|++.|++|.+ .+||+||++||.|..++.-.
T Consensus       200 ~~~~l~~~m~~aa~~l~FE~Aa~~Rd~i~~l~~~~  234 (577)
T PRK14668        200 LADPLRREMEAAAQAQEFERAANLRDRLEAVEAFH  234 (577)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            45778899999987 99999999999999998533

>PRK14667 uvrC excinuclease ABC subunit C; Provisional

Probab=92.44  E-value=0.18  Score=49.84  Aligned_cols=35  Identities=14%  Similarity=0.085  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|-+ .+||+||++||.|..++.-.
T Consensus       199 ~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~  234 (567)
T PRK14667        199 EVLPELYDKIEEYSQKLMFEKAAVIRDQILALENLI  234 (567)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            345778888888887 99999999999999998643

>PRK14672 uvrC excinuclease ABC subunit C; Provisional

Probab=92.44  E-value=0.17  Score=50.89  Aligned_cols=33  Identities=24%  Similarity=0.374  Sum_probs=28.7

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHH
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRA  212 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~  212 (220)
                      .-+..|++.|++|.+ .+||+||++||.|..++.
T Consensus       205 ~ll~~L~~~M~~AA~~l~FE~AA~lRD~i~aL~~  238 (691)
T PRK14672        205 ATVARLEKRMKRAVRQEAFEAAARIRDDIQAIRC  238 (691)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence            335778888999987 999999999999999985

>PRK14669 uvrC excinuclease ABC subunit C; Provisional

Probab=92.44  E-value=0.18  Score=50.26  Aligned_cols=35  Identities=20%  Similarity=0.204  Sum_probs=29.5

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|.+ .+||+||++||.|+.++.-.
T Consensus       203 ~l~~~L~~~M~~aa~~l~FE~Aa~~RD~i~~l~~~~  238 (624)
T PRK14669        203 DLARSLRARMEAAALEMQFELAAKYRDLITTVEELE  238 (624)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            345778888888887 99999999999999998643

>PRK14671 uvrC excinuclease ABC subunit C; Provisional

Probab=92.28  E-value=0.2  Score=50.02  Aligned_cols=35  Identities=14%  Similarity=0.265  Sum_probs=29.5

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-++.|++.|++|.+ .+||+||++||.|..++.-.
T Consensus       215 ~l~~~L~~~M~~as~~l~FE~Aa~~RD~i~~l~~~~  250 (621)
T PRK14671        215 ALIRSLTEEMQRAAAELKFEEAAELKDQIESLKRYA  250 (621)
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHH
Confidence            345778888999987 99999999999999997533

>PRK14670 uvrC excinuclease ABC subunit C; Provisional

Probab=92.09  E-value=0.2  Score=49.51  Aligned_cols=35  Identities=14%  Similarity=0.208  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|.+ .+||+||++||.|..++.-.
T Consensus       177 ~~~~~L~~~M~~aa~~l~FE~Aa~~RD~i~al~~~~  212 (574)
T PRK14670        177 KLLSQIEIKMKEAIQKEDFEAAIKLKETKRSLIEIS  212 (574)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence            345778888899987 99999999999999998643

>COG0322 UvrC Nuclease subunit of the excinuclease complex [DNA replication, recombination, and repair]

Probab=90.94  E-value=0.36  Score=47.86  Aligned_cols=35  Identities=20%  Similarity=0.267  Sum_probs=29.8

Q ss_pred             hhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          180 KEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       180 ~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      .-+..|++.|++|-+ .+||+||++||.|+.++.-.
T Consensus       202 ~v~~~L~~~M~~As~~l~FE~Aa~~RD~i~al~~l~  237 (581)
T COG0322         202 AVLQELEEKMEEASENLDFERAARLRDQIKALEKLQ  237 (581)
T ss_pred             HHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHH
Confidence            345778899999987 99999999999999998644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	220
1sj5_A	164	Crystal Structure Of A Duf151 Family Protein (tm016		6e-04

>pdb|1SJ5|A Chain A, Crystal Structure Of A Duf151 Family Protein (tm0160) From Thermotoga Maritima At 2.8 A Resolution Length = 164

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 33/117 (28%), Positives = 54/117 (46%), Gaps = 7/117 (5%)
Query: 29  PAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVR 88
           P ++L +E GT  +LPI +       L  AM  ++  RP  + ++  ++E +   V  V 
Sbjct: 30  PVVILGIE-GTNRVLPIWIGAAEGHALALAMEKMEFPRPLTHDLLLSVLESLEARVDKVI 88
Query: 89  VTKRVHEAYFAQL------YLTKVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYL 139
           +       ++A L      Y  +   E   +  D RPSDAI +AV+   PI V+  L
Sbjct: 89  IHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNL 145

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	220
1vjl_A	164	Hypothetical protein TM0160; structural genomics,	5e-23

>1vjl_A Hypothetical protein TM0160; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 1.90A {Thermotoga maritima} SCOP: d.257.1.1 PDB: 1sj5_A Length = 164

 Score = 90.2 bits (223), Expect = 5e-23
 Identities = 33/155 (21%), Positives = 61/155 (39%), Gaps = 18/155 (11%)

Query: 1   MIKMRDGRHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMR 60
           M K      ++ +  +            P ++L   +GT  +LPI +       L  AM 
Sbjct: 13  MRKAW----VKTLALDRVSNT-------PVVILG-IEGTNRVLPIWIGACEGHALALAME 60

Query: 61  NVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQLYL------TKVGNETECVS 114
            ++  RP  + ++  ++E +   V  V +       ++A L +       +   E   + 
Sbjct: 61  KMEFPRPLTHDLLLSVLESLEARVDKVIIHSLKDNTFYATLVIRDLTYTDEEDEEAALID 120

Query: 115 FDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE 149
            D RPSDAI +AV+   PI V+  L     + +  
Sbjct: 121 IDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV 155

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	220
1vjl_A	164	Hypothetical protein TM0160; structural genomics,	100.0
1e52_A	63	Excinuclease ABC subunit; DNA excision repair, UVR	97.95
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	96.09
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	95.39

>1vjl_A Hypothetical protein TM0160; structural genomics, joint center for structural genomics, J protein structure initiative, PSI; 1.90A {Thermotoga maritima} SCOP: d.257.1.1 PDB: 1sj5_A

Probab=100.00  E-value=1.8e-42  Score=286.28  Aligned_cols=139  Identities=24%  Similarity=0.355  Sum_probs=126.1

Q ss_pred             ceeEEeecCCCCCccCCCCCCcEEEEEEeCCCceEEEEEEccHHHHHHHHHhccCCCCCCChHHHHHHHHHHhCCeEeEE
Q 027663            8 RHLRCVHNNPQGGHLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLV   87 (220)
Q Consensus         8 ~~~~~~~~~~~~g~l~~~~~~pvlvL~~~~~~~r~LPI~Ig~~eA~aI~~~l~~~~~~RPlThDLl~~vl~~lg~~v~~V   87 (220)
                      .||+-..|  .++++|+.+++|+|||++++++ |+||||||.+||++|+.++++..++||+|||||.++++++|.++.+|
T Consensus        11 ~~~~~~~v--~gi~ld~~~~~pvvvL~~~~g~-r~LPI~Ig~~EA~aI~~~l~~~~~~RPlThDLl~~il~~lg~~v~~V   87 (164)
T 1vjl_A           11 HHMRKAWV--KTLALDRVSNTPVVILGIEGTN-RVLPIWIGACEGHALALAMEKMEFPRPLTHDLLLSVLESLEARVDKV   87 (164)
T ss_dssp             -CEEEEEE--EEEEECTTTCCEEEEEEETTSS-EEEEEECCHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHTTEEEEEE
T ss_pred             hceeEEEE--EEEEEcCCCCceEEEEEecCCC-EEEEEEECHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHcCCEEEEE
Confidence            35666777  8899999999999999998886 89999999999999999999999999999999999999999999999


Q ss_pred             EEEeeECCEEEEEEEEe------ecCccceEEEEeCChHHHHHHHHHcCCCEEEehhhhhhcCeeeee
Q 027663           88 RVTKRVHEAYFAQLYLT------KVGNETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE  149 (220)
Q Consensus        88 ~I~~~~dGvf~A~L~l~------~~~~~~~~~~iDaRPSDAIaLAlr~~~PIyV~e~Vl~~~~i~~~~  149 (220)
                      +|++++||+|||+|+|+      +++++.+..++|||||||||||+|+++||||+++|++++|++++.
T Consensus        88 ~I~~l~dgtfyA~L~l~~~~~~~~~~~~~~~~~iDaRPSDAIaLAlR~~~PI~V~e~Vl~~a~i~~~~  155 (164)
T 1vjl_A           88 IIHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV  155 (164)
T ss_dssp             EEEEEETTEEEEEEEEEECC--------CCEEEEEECHHHHHHHHHHHTCCEEEEHHHHHHHCEECCH
T ss_pred             EEEEeECCEEEEEEEEeccccccCCCCcceEEEEECcHHHHHHHHHHHCCCEEEcHHHHhhcCCCCcc
Confidence            99999999999999999      654223578999999999999999999999999999999998864

>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex, hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A* 1d9x_A 2d7d_B* 2nmv_B*

Probab=96.09  E-value=0.003  Score=61.19  Aligned_cols=35  Identities=26%  Similarity=0.317  Sum_probs=25.8

Q ss_pred             hhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHh
Q 027663          179 TKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK  213 (220)
Q Consensus       179 ~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~  213 (220)
                      ...+..|+++|++|.+ ++||+||++||+|+.|+++
T Consensus       625 ~~~i~~l~~~m~~aa~~~~fe~Aa~~Rd~i~~l~~~  660 (661)
T 2d7d_A          625 QKVVEQMEHEMKEAAKALDFERAAELRDLLLELKAE  660 (661)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHhc
Confidence            3556789999999998 9999999999999999753

>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase, hypertherm protein, replication; HET: DNA BOG; 1.50A {Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1d2m_A*

Probab=95.39  E-value=0.0027  Score=61.58  Aligned_cols=37  Identities=22%  Similarity=0.253  Sum_probs=0.0

Q ss_pred             chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHhh
Q 027663          178 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAKR  214 (220)
Q Consensus       178 ~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~~  214 (220)
                      ..+.++.|++.|++|.+ ++||+||+|||+|+.|+++.
T Consensus       609 ~~~~i~~l~~~m~~aa~~l~fe~Aa~lRd~i~~l~~~~  646 (664)
T 1c4o_A          609 LRERIAELELAMWQAAEALDFERAARLRDEIRALEARL  646 (664)
T ss_dssp             --------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHH
Confidence            44667889999999997 99999999999999998653

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	220
d1vjla_	151	d.257.1.1 (A:) Hypothetical protein TM0160 {Thermo	3e-27

>d1vjla_ d.257.1.1 (A:) Hypothetical protein TM0160 {Thermotoga maritima [TaxId: 2336]} Length = 151

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein TM0160
superfamily: Hypothetical protein TM0160
family: Hypothetical protein TM0160
domain: Hypothetical protein TM0160
species: Thermotoga maritima [TaxId: 2336]

 Score = 99.6 bits (248), Expect = 3e-27
 Identities = 31/133 (23%), Positives = 57/133 (42%), Gaps = 6/133 (4%)

Query: 24  DYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYE 83
           D   +  +V+   +GT  +LPI +       L  AM  ++  RP  + ++  ++E +   
Sbjct: 13  DRVSNTPVVILGIEGTNRVLPIWIGACEGHALALAMEKMEFPRPLTHDLLLSVLESLEAR 72

Query: 84  VRLVRVTKRVHEAYFAQLYL------TKVGNETECVSFDLRPSDAINIAVRCKVPIQVNK 137
           V  V +       ++A L +       +   E   +  D RPSDAI +AV+   PI V+ 
Sbjct: 73  VDKVIIHSLKDNTFYATLVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSD 132

Query: 138 YLAYSDGMRVIES 150
            L     + +  +
Sbjct: 133 NLVEKHSIELEVN 145

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	220
d1vjla_	151	Hypothetical protein TM0160 {Thermotoga maritima [	100.0
d1e52a_	56	C-terminal UvrC-binding domain of UvrB {Escherichi	97.98

>d1vjla_ d.257.1.1 (A:) Hypothetical protein TM0160 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Hypothetical protein TM0160
superfamily: Hypothetical protein TM0160
family: Hypothetical protein TM0160
domain: Hypothetical protein TM0160
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=4.3e-41  Score=272.87  Aligned_cols=128  Identities=24%  Similarity=0.372  Sum_probs=118.2

Q ss_pred             ccCCCCCCcEEEEEEeCCCceEEEEEEccHHHHHHHHHhccCCCCCCChHHHHHHHHHHhCCeEeEEEEEeeECCEEEEE
Q 027663           21 HLPDYAPHPAIVLKMEDGTGLLLPIIVLEMPSVLLMAAMRNVQIARPTLYQVVKEMIEKMGYEVRLVRVTKRVHEAYFAQ  100 (220)
Q Consensus        21 ~l~~~~~~pvlvL~~~~~~~r~LPI~Ig~~eA~aI~~~l~~~~~~RPlThDLl~~vl~~lg~~v~~V~I~~~~dGvf~A~  100 (220)
                      ++++.+++|+|+|++++++ +.||||||..||++|+.+++|..++||+|||||.++++++|+++.+|+|+++++|+|||+
T Consensus        11 ~~~~~~~~pvvlL~~~~~~-~~LPI~Ig~~EA~~I~~~l~~~~~~RP~thDLl~~~l~~lg~~v~~V~I~~~~dg~fyA~   89 (151)
T d1vjla_          11 ALDRVSNTPVVILGIEGTN-RVLPIWIGACEGHALALAMEKMEFPRPLTHDLLLSVLESLEARVDKVIIHSLKDNTFYAT   89 (151)
T ss_dssp             EECTTTCCEEEEEEETTSS-EEEEEECCHHHHHHHHHHHHTCCCSSCCHHHHHHHHHHHTTEEEEEEEEEEEETTEEEEE
T ss_pred             EEecCCCCcEEEEEECCCC-eEEEEEEChHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHhCCEEEEEEEEEEecCCeEEE
Confidence            7788899999999998776 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeecCc------cceEEEEeCChHHHHHHHHHcCCCEEEehhhhhhcCeeeee
Q 027663          101 LYLTKVGN------ETECVSFDLRPSDAINIAVRCKVPIQVNKYLAYSDGMRVIE  149 (220)
Q Consensus       101 L~l~~~~~------~~~~~~iDaRPSDAIaLAlr~~~PIyV~e~Vl~~~~i~~~~  149 (220)
                      |++.++..      .++..++||||||||+||+|+++||||+++|++++|+++..
T Consensus        90 L~l~~~~~~~~~~~~~~~~~iDaRPSDAIaLAlr~~~PI~v~~~Vl~~a~i~~~~  144 (151)
T d1vjla_          90 LVIRDLTYTDEEDEEAALIDIDSRPSDAIILAVKTGAPIFVSDNLVEKHSIELEV  144 (151)
T ss_dssp             EEEEECC--------CCEEEEEECHHHHHHHHHHHTCCEEEEHHHHHHHCEECCH
T ss_pred             EEEecCcccccccccCceeEeccChhHHHHHHHhhCCCEEEcHHHHHhcCCCCCc
Confidence            99976431      13678999999999999999999999999999999997654

>d1e52a_ a.2.9.1 (A:) C-terminal UvrC-binding domain of UvrB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: C-terminal UvrC-binding domain of UvrB
family: C-terminal UvrC-binding domain of UvrB
domain: C-terminal UvrC-binding domain of UvrB
species: Escherichia coli [TaxId: 562]

Probab=97.98  E-value=2.7e-06  Score=56.52  Aligned_cols=36  Identities=25%  Similarity=0.408  Sum_probs=32.3

Q ss_pred             chhhHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHHHh
Q 027663          178 DTKEFNLVRNMLIAAVE-ERYRDAAQWRDKLGQLRAK  213 (220)
Q Consensus       178 ~~~~~~~l~~~l~~ai~-E~YE~Aa~iRDei~~~~~~  213 (220)
                      ..+.+..|++.|.+|.+ .+||+||.+||+|+.+++.
T Consensus        15 l~k~i~~Le~~M~~aa~~l~FE~AA~~RD~I~~l~~~   51 (56)
T d1e52a_          15 LQQKIHELEGLMMQHAQNLEFEEAAQIRDQLHQLREL   51 (56)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH
Confidence            35778999999999998 9999999999999999864