Citrus Sinensis ID: 037694

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-----
Protein Sequence
VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEEccccEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEccccccccccHHHHHHHHHHHHHHHHccccccEEEEccccEEEEEEEEEcccccEEEccccccccccccccccccccccccccccEEEEEEcHHHHHHHHHccccccccEEEEEccccccHHHHHHHHHHHHHcccccEEEEEcccccccHHHHHHHcccccccHHHHHHccccEEEEccccccccccccccccccHHHHHHHHHHHccHHHHHHHHHHHHHHHHcccEEEEEEHHcccccHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHcccccEEEcccEEcccccccccEEEcccccEEEEcccccEEEcccHHHHHHHHHHHHHHHHHHHHHHccccccHHEEEEEcccccHHHHccHHHHHHHHHHHHHHHcccHHHccccEccccEEEEEEEEEEccccEEEccccccccEEcccccccEEEEEEEEccEEEEEEEcHHHHHHHHHccHHHcccEEEEEccccccHHHHHHHHHHHHHcccccEEEEEccccccHHEEHEEHHccHHHHHHHHccccccEEEEEcccHHHHccccccccccHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHcccHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
VRARIEVSVINFLKilnspdpaisdlplinrkssnsrvsqglLTDVSWIFLShsfctrsltkSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLcdspeyftsqlQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRlmlqepnqevidcsacgssgysisgdlsllekldlktdARYIIVVEKHAIFQRLTedfvfnqipsilitakgypdiATRFLLHRLnrafpdlpilalvdwnpaGLAILCTfkfgsigmgMEAYRYACNVKwlglrgddvqlipeqsllplkprdLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Flexible Loop (DISEMBL)
VRARIEVSVINflkilnspdpaisDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEqsllplkprDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Low Complexity Region (SEG)
VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Disordered region (IsUnstruct)
****IEVSVINFLKILNSP***I***************SQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQA***
Disordered Region (DISOPRED)
VRARIEVSVINFLKILNSPDP**SDLPLINRKSSNSRVSQGLLTDVSWIF************SNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Disordered Region (DISEMBL)
VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
Disordered Region (DISPRO)
VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQ***I
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI
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	355	2.2.26 [Sep-21-2011]
Q9M4A1	383	Meiotic recombination pro	yes	no	0.997	0.924	0.771	1e-167
Q9LZ03	427	DNA topoisomerase 6 subun	no	no	0.960	0.798	0.315	3e-47
Q9Y5K1	396	Meiotic recombination pro	no	no	0.828	0.742	0.326	3e-42
Q9WTK8	396	Meiotic recombination pro	yes	no	0.805	0.722	0.322	2e-40
Q9M4A2	362	Meiotic recombination pro	no	no	0.726	0.712	0.347	9e-35
P40384	345	Meiotic recombination pro	yes	no	0.873	0.898	0.270	2e-27
O05208	389	Type 2 DNA topoisomerase	N/A	no	0.946	0.863	0.270	5e-27
Q971T1	387	Type 2 DNA topoisomerase	yes	no	0.828	0.759	0.275	3e-25
A2BLE8	387	Type 2 DNA topoisomerase	yes	no	0.853	0.782	0.268	7e-24
Q22236	425	Meiotic recombination pro	yes	no	0.830	0.694	0.295	2e-23

>sp|Q9M4A1|SPO12_ARATH Meiotic recombination protein SPO11-2 OS=Arabidopsis thaliana GN=SPO11-2 PE=1 SV=1

 Score =  587 bits (1513), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 273/354 (77%), Positives = 315/354 (88%)

Query: 2   RARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLT 61
           RARIEVSV+N L+ILNSPDPAISDL LINRK SNS +++G+LTDVS+IFLS SF   SLT
Sbjct: 30  RARIEVSVLNLLRILNSPDPAISDLSLINRKRSNSCINKGILTDVSYIFLSTSFTKSSLT 89

Query: 62  KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIA 121
            +  AKAFVRVWKVME CFQIL QEKRVTQRELFYKLLCDSP+YF+SQ++VNR++QDV+A
Sbjct: 90  NAKTAKAFVRVWKVMEICFQILLQEKRVTQRELFYKLLCDSPDYFSSQIEVNRSVQDVVA 149

Query: 122 LLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTD 181
           LL CSR+SLGI+ASSRGLVAGRL LQEP +E +DCSACGSSG++I+GDL+LL+   ++TD
Sbjct: 150 LLRCSRYSLGIMASSRGLVAGRLFLQEPGKEAVDCSACGSSGFAITGDLNLLDNTIMRTD 209

Query: 182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
           ARYII+VEKHAIF RL ED VFN IP + ITAKGYPDIATRF LHR++  FPDLPIL LV
Sbjct: 210 ARYIIIVEKHAIFHRLVEDRVFNHIPCVFITAKGYPDIATRFFLHRMSTTFPDLPILVLV 269

Query: 242 DWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
           DWNPAGLAILCTFKFGSIGMG+EAYRYACNVKW+GLRGDD+ LIPE+SL+PLKP+D QIA
Sbjct: 270 DWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWIGLRGDDLNLIPEESLVPLKPKDSQIA 329

Query: 302 RSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           +SL+SS+ILQENY EELSLMV  G+RAE+EALY HGY+YLGKYIA KIVQ  YI
Sbjct: 330 KSLLSSKILQENYIEELSLMVQTGKRAEIEALYCHGYNYLGKYIATKIVQGKYI 383

Required for meiotic recombination. Mediates DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LZ03|TOP6A_ARATH DNA topoisomerase 6 subunit A OS=Arabidopsis thaliana GN=TOP6A PE=1 SV=1

 Score =  189 bits (480), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 114/361 (31%), Positives = 201/361 (55%), Gaps = 20/361 (5%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           V+  IE  ++   + + + D     +P  +R +SN    Q  + ++  I L      R  
Sbjct: 81  VQTEIETVIVQIARSILAGDGFSFSVP--SRAASN----QLYVPELDRIVLKDKSTLRPF 134

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
              ++ +      +++    Q+  +   VT+R+LFY  +    + F  Q Q +  + DV 
Sbjct: 135 ASVSSVRKTTITTRILALIHQLCLRNIHVTKRDLFYTDV----KLFQDQTQSDAVLDDVS 190

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
            +L C+R SL ++A+ +G+V GRL+  + N ++IDC+  G  G +I  ++  +   D+++
Sbjct: 191 CMLGCTRSSLNVIAAEKGVVVGRLIFSD-NGDMIDCTKMGMGGKAIPPNIDRVG--DMQS 247

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DA +I++VEK A + RL ED  +N+ P I++TAKG PD+ATR  L ++      LP+LAL
Sbjct: 248 DAMFILLVEKDAAYMRLAEDRFYNRFPCIIVTAKGQPDVATRLFLRKMKMEL-KLPVLAL 306

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQ--LIPEQSLLPLKPRD 297
           VD +P GL IL  +  GS  M  ++      ++KWLG+R  D+    IPEQ  LP+  +D
Sbjct: 307 VDSDPYGLKILSVYGCGSKNMSYDSANLTTPDIKWLGIRPSDLDKYKIPEQCRLPMTEQD 366

Query: 298 LQIARSLMSSEILQEN--YKEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKKIVQADY 354
           ++  + ++  + +++N  + EEL+LMV   Q+AE++AL   G+ YL + Y+  K+ Q D+
Sbjct: 367 IKTGKDMLEEDFVKKNPGWVEELNLMVKTKQKAEIQALSSFGFQYLSEVYLPLKLQQQDW 426

Query: 355 I 355
           +
Sbjct: 427 L 427

Component of the DNA topoisomerase VI involved in chromatin organization and progression of endoreduplication cycles. Relaxes both positive and negative superturns and exhibits a strong decatenase activity. Involved in cell-elongation processes.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9Y5K1|SPO11_HUMAN Meiotic recombination protein SPO11 OS=Homo sapiens GN=SPO11 PE=2 SV=1

 Score =  172 bits (437), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 102/312 (32%), Positives = 182/312 (58%), Gaps = 18/312 (5%)

Query: 54  SFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQL 110
           S CT    KS++ K+   F  + K++   ++++      T+R+++Y    DS + F +Q 
Sbjct: 93  SHCTTRKIKSDSPKSAQKFSLILKILSMIYKLVQSNTYATKRDIYY---TDS-QLFGNQT 148

Query: 111 QVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
            V+  I D+  +L  SR SL I+++S+GL+AG L   E +   ++C+ CG++  ++  ++
Sbjct: 149 VVDNIINDISCMLKVSRRSLHILSTSKGLIAGNLRYIEEDGTKVNCT-CGATAVAVPSNI 207

Query: 171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLN 229
             +   +L TDA+++++VEK A FQRL +D   N++ P I+IT KG PD+ TR L+ +L 
Sbjct: 208 QGIR--NLVTDAKFVLIVEKDATFQRLLDDNFCNKLSPCIMITGKGVPDLNTRLLVKKLW 265

Query: 230 RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQL--IP 286
             F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   +P
Sbjct: 266 DTF-HVPVFTLVDADPHGIEIMCIYKYGSMSMSFEAHHLTVPAIRWLGLLPSDLKRLNVP 324

Query: 287 EQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK- 343
           + SL+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL + 
Sbjct: 325 KDSLIPLTKRDQMKLDSILRRPYVTCQPFWRKEMEIMADSKMKAEIQALTFLSSDYLSRV 384

Query: 344 YIAKKIVQADYI 355
           Y+  K+    +I
Sbjct: 385 YLPNKLKFGGWI 396

Required for meiotic recombination. Mediates DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.

Homo sapiens (taxid: 9606)

>sp|Q9WTK8|SPO11_MOUSE Meiotic recombination protein SPO11 OS=Mus musculus GN=Spo11 PE=2 SV=2

 Score =  166 bits (421), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 98/304 (32%), Positives = 173/304 (56%), Gaps = 18/304 (5%)

Query: 56  CTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQV 112
           CT    +S++ K+   F  + KV+   ++++  +   T+R+++Y    DS + F +Q  V
Sbjct: 95  CTTRKIRSDSPKSVKKFALILKVLSMIYKLIQSDTYATKRDIYY---TDS-QLFGNQAAV 150

Query: 113 NRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSL 172
           +  I D+  +L   R SL ++++S+GL+AG L   E +   + C+ C ++  ++  ++  
Sbjct: 151 DSAIDDISCMLKVPRRSLHVLSTSKGLIAGNLRYMEEDGTRVQCT-CSATATAVPTNIQG 209

Query: 173 LEKLDLKTDARYIIVVEKHAIFQRLTED-FVFNQIPSILITAKGYPDIATRFLLHRLNRA 231
           ++ L   TDA+++++VEK A FQRL +D F     P I++T KG PD+ TR L+ +L   
Sbjct: 210 MQHL--ITDAKFLLIVEKDATFQRLLDDNFCSRMSPCIMVTGKGVPDLNTRLLVKKLWDT 267

Query: 232 FPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQL--IPEQ 288
           F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D+Q   IP+ 
Sbjct: 268 F-HIPVFTLVDADPYGIEIMCIYKYGSMSMSFEAHNLTIPTIRWLGLLPSDIQRLNIPKD 326

Query: 289 SLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK-YI 345
           SL+PL   D     S++    +  Q  +K+EL +M  +  +AE++AL     DYL + Y+
Sbjct: 327 SLIPLTKHDQMKLDSILKRPYITYQPLWKKELEMMADSKMKAEIQALTLLSSDYLSRVYL 386

Query: 346 AKKI 349
             K+
Sbjct: 387 PNKL 390

Required for meiotic recombination. Mediates DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.

Mus musculus (taxid: 10090)

>sp|Q9M4A2|SPO11_ARATH Meiotic recombination protein SPO11-1 OS=Arabidopsis thaliana GN=SPO11-1 PE=1 SV=1

 Score =  147 bits (372), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 97/279 (34%), Positives = 152/279 (54%), Gaps = 21/279 (7%)

Query: 81  QILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLV 140
           Q+L + +  ++R+++Y      P  F +Q  V+R I D+  L  CSR++L +V+   GLV
Sbjct: 88  QLLQENRHASKRDIYYM----HPSAFKAQSIVDRAIGDICILFQCSRYNLNVVSVGNGLV 143

Query: 141 AGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTED 200
            G L  +E  ++  DC    ++ Y +   +  +E  D+ + A YI+VVEK  +FQRL  D
Sbjct: 144 MGWLKFREAGRK-FDCLNSLNTAYPVPVLVEEVE--DIVSLAEYILVVEKETVFQRLAND 200

Query: 201 FVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIG 260
                   I+IT +GYPD++TR  L  L      LP+  LVD +P G  IL T++FGS+ 
Sbjct: 201 MFCKTNRCIVITGRGYPDVSTRRFLRLLMEKL-HLPVHCLVDCDPYGFEILATYRFGSMQ 259

Query: 261 MG--MEAYRYACNVKWLGLRGDDVQL--IPEQSLLPLKPRDLQ-----IARSLMSSEILQ 311
           M   +E+ R A ++KWLG    D ++  +P+Q LLPL   D +     + R  +  E+ Q
Sbjct: 260 MAYDIESLR-APDMKWLGAFPSDSEVYSVPKQCLLPLTEEDKKRTEAMLLRCYLKREMPQ 318

Query: 312 ENYKEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKKI 349
             ++ EL  M+  G + E+EAL  H   +L + YI  KI
Sbjct: 319 --WRLELETMLKRGVKFEIEALSVHSLSFLSEVYIPSKI 355

Required for meiotic recombination. Mediates DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.

Arabidopsis thaliana (taxid: 3702)

>sp|P40384|REC12_SCHPO Meiotic recombination protein rec12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rec12 PE=1 SV=2

 Score =  123 bits (309), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 91/336 (27%), Positives = 171/336 (50%), Gaps = 26/336 (7%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           VR+ IE  V +F++ L+ P     ++ L  RK ++   S     +        SF     
Sbjct: 10  VRSWIEQFVHDFVEQLSKPTKDSVNVALKRRKHNSWNGSLDSKANERQKVKVFSFPRNET 69

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
           T         ++++V++   + +  +  +T+R+++Y+ +    + F  Q  V+  + D+ 
Sbjct: 70  T-------IAQLFRVLDCVHEAVISDTVITKRDIYYRDV----DLFKRQTVVDELLGDIS 118

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSA-CGSSGYSISGDLSLLEKLDLK 179
             + CSR  L + AS++GLV G + +   N  VI  +     S + IS          + 
Sbjct: 119 NTIGCSRSDLNVEASAKGLVFGSIHIALENGTVITATKPLLISHHRISS---------IT 169

Query: 180 TDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA 239
           + A++++V+EK A+FQ LTE+ + +   +I++TAKG+PD+ TR  L +L +A PD     
Sbjct: 170 STAKWVLVIEKEAVFQTLTEEALAD---TIIVTAKGFPDLMTRKFLVKLAKALPDAKFFG 226

Query: 240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQ 299
           + DW+P GL I   FK+GS     E +    N++ LG   +D+    ++  L L  RD++
Sbjct: 227 IFDWDPHGLCIYSCFKYGSNAYSHEPHSQLRNLQLLGPLYEDIFNKNQEFSLKLNKRDIK 286

Query: 300 IARSLMSSEILQEN--YKEELSLMVHNGQRAEVEAL 333
           +  +L+  E  Q+    +E+L  M+   ++AE++A+
Sbjct: 287 MITTLLQFEGFQKEPVVREQLQRMLFIQKKAEIQAI 322

Required for crossover recombination and chiasmatic segregation of chromosomes during meiosis I. Also involved in the faithful equational segregation of chromosomes during meiosis II.

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

>sp|O05208|TOP6A_SULSH Type 2 DNA topoisomerase 6 subunit A OS=Sulfolobus shibatae GN=top6A PE=1 SV=1

 Score =  122 bits (305), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 101/373 (27%), Positives = 176/373 (47%), Gaps = 37/373 (9%)

Query: 10  INFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAF 69
           +N ++ L   +P + ++P+  R  SN+   +     +           R+    N AK F
Sbjct: 26  LNLVEQLKKGEPLVMEIPM--RTLSNAIYDEKRKLLLL----GEKKLRRNFLDLNEAKRF 79

Query: 70  VRVWKVMETCFQILSQEKRVTQRELFYK----LLCDSPE---------YFTSQLQVNRTI 116
           ++   +    +  L  ++  T R+L+Y+    LL  S E          +  Q + +  I
Sbjct: 80  MQTVLMASIIYDALVSDEYPTIRDLYYRGKHSLLLKSIEGNKIVSEENTWDEQKESDSVI 139

Query: 117 QDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKL 176
            D+       R  + I++  +G V G L ++  N +VID S  G   Y+I     L++ +
Sbjct: 140 VDIEVFTSLLREEMLILSKEKGKVVGNLRIRSGN-DVIDLSKTGHGAYAIEPTPDLIDFI 198

Query: 177 DLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLP 236
           D+  DA +++VVEK A+FQ+L     + Q  SILIT+ G PD ATR  + RLN     LP
Sbjct: 199 DV--DAEFVLVVEKDAVFQQLHRAGFWKQYKSILITSAGQPDRATRRFVRRLNEELK-LP 255

Query: 237 ILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDV-----------QL 284
           +  L D +P G  I   F+ GSI +  E+ R A  + K+LG+   D+           + 
Sbjct: 256 VYILTDADPYGWYIFSVFRIGSISLSYESERLATPDAKFLGVSMGDIFGNSRKKPYLSEA 315

Query: 285 IPEQSLLPLKPRDLQIARSLMSSEILQ-ENYKEELSLMVHNGQRAEVEALYFHGYDYLG- 342
             +  ++  K  D++ A  + + E  + + ++EE++  +    + E+EA+   G  +L  
Sbjct: 316 ERKNYIIKAKDADIKRAEEIKNYEWFKTKAWQEEINTFLQRKAKLEIEAMASKGLKFLAF 375

Query: 343 KYIAKKIVQADYI 355
           +YI +KI   DYI
Sbjct: 376 QYIPEKITNKDYI 388

Relaxes both positive and negative superturns and exhibits a strong decatenase activity.

Sulfolobus shibatae (taxid: 2286)

EC: 5

EC: .

EC: 9

EC: 9

EC: .

EC: 1

EC: .

EC: 3

>sp|Q971T1|TOP6A_SULTO Type 2 DNA topoisomerase 6 subunit A OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) GN=top6A PE=3 SV=1

 Score =  116 bits (290), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 89/323 (27%), Positives = 158/323 (48%), Gaps = 29/323 (8%)

Query: 58  RSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYK----LLCDSPEYFT------ 107
           RS    N +K F++   +    +  L  ++  T R+L+Y+    ++   P   T      
Sbjct: 68  RSFFDLNESKRFMQTVLMASIIYDALINDEYPTIRDLYYRGKHSIILKDPRGKTYEENTW 127

Query: 108 -SQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSI 166
             Q + +  I D+       R  + I++  +G V G + ++  N ++ID S  G   YSI
Sbjct: 128 DEQKESDSVIMDIEVFTSLLREDMLILSKEKGKVVGDMRIRSGN-DIIDLSKMGHGAYSI 186

Query: 167 SGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLH 226
                L++ +D+  +A +++VVEK A+FQ+L     + Q  +IL+T+ G PD ATR  + 
Sbjct: 187 EPTPDLIDFVDI--NAEFVLVVEKDAVFQQLHRAGFWKQYKAILVTSAGQPDRATRRFVR 244

Query: 227 RLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDV--- 282
           RLN     LP+  L D +P G  I   F+ GSI +  E+ R A  N K+LG+   D+   
Sbjct: 245 RLNEELK-LPVYILTDADPYGWYIYSVFRIGSISLSYESERLATPNAKFLGVSMTDIFGD 303

Query: 283 ----QLIPEQS----LLPLKPRDLQIARSLMSSEILQ-ENYKEELSLMVHNGQRAEVEAL 333
                 + EQ     ++  K  D++ A  + + +  + + ++ E+ + ++   + E+EA+
Sbjct: 304 SNKKPYLSEQERRNYIIKAKDADIKRATEIKNYQWFKTKAWQHEIEIFLNKKSKLEIEAM 363

Query: 334 YFHGYDYLG-KYIAKKIVQADYI 355
              G  +L  +YI +KI   DYI
Sbjct: 364 ASKGLKFLAFQYIPEKIKSKDYI 386

Relaxes both positive and negative superturns and exhibits a strong decatenase activity.

Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 / 7) (taxid: 273063)

EC: 5

EC: .

EC: 9

EC: 9

EC: .

EC: 1

EC: .

EC: 3

>sp|A2BLE8|TOP6A_HYPBU Type 2 DNA topoisomerase 6 subunit A OS=Hyperthermus butylicus (strain DSM 5456 / JCM 9403) GN=top6A PE=3 SV=1

 Score =  111 bits (278), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 89/332 (26%), Positives = 160/332 (48%), Gaps = 29/332 (8%)

Query: 49  IFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYK----LLCDSP- 103
           + L      RS    + +K F++   +    ++ L + +  T R+L+Y+    ++   P 
Sbjct: 59  LLLGPEKLKRSFFDLHESKKFMQTLLMARIIYEALERNEYPTIRDLYYRGKHTIVYREPG 118

Query: 104 ------EYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCS 157
                   +  Q + +  I+D+       R  + I++  +G V G + ++    ++ID S
Sbjct: 119 GRRHEENTWDEQRESDAVIRDIEVFTGLLREEMLILSKEKGKVVGNMRIR-SGGDIIDLS 177

Query: 158 ACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYP 217
             G   Y+I     L+E +D+  DA Y++VVEK A+FQ+L     + +  +ILIT+ G P
Sbjct: 178 KMGHGAYAIEPTPDLIEFIDV--DAEYVLVVEKDAVFQQLHRIGFWKKHRAILITSAGQP 235

Query: 218 DIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLG 276
           D ATR  + RLN     LP+  L D +P G  I   FK GSI +  E+ R A  N +++G
Sbjct: 236 DRATRRFVRRLNEEL-GLPVYILTDADPYGWYIYSVFKIGSITLSYESERLATPNARFIG 294

Query: 277 LRGDDV-------QLIPEQS----LLPLKPRDLQIARSLMSSEILQ-ENYKEELSLMVHN 324
           +   D+         + EQ     ++  K  D++ A  L + +  Q + ++ E+ + +  
Sbjct: 295 VSMTDIFGYKSKKPYLTEQERRNFIIKAKEADIKRAYELKNYKWFQTKKWQIEIDIFLEK 354

Query: 325 GQRAEVEALYFHGYDYLG-KYIAKKIVQADYI 355
             + E+EA+   G  +L  KY+ +KI   D+I
Sbjct: 355 KAKLEIEAMTSKGLRFLADKYLPEKIETGDWI 386

Relaxes both positive and negative superturns and exhibits a strong decatenase activity.

Hyperthermus butylicus (strain DSM 5456 / JCM 9403) (taxid: 415426)

EC: 5

EC: .

EC: 9

EC: 9

EC: .

EC: 1

EC: .

EC: 3

>sp|Q22236|SPO11_CAEEL Meiotic recombination protein spo-11 OS=Caenorhabditis elegans GN=spo-11 PE=3 SV=1

 Score =  110 bits (274), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 97/328 (29%), Positives = 153/328 (46%), Gaps = 33/328 (10%)

Query: 29  INRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCFQILSQEKR 88
           I R+  N   S  L    S    SH FC R   K        R    +   + +L  +KR
Sbjct: 58  IKRQMDNKEKSLTLRISTSK---SH-FCLRYTAKRKGK--LDRDLHCLHQVYDLLENDKR 111

Query: 89  VTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQE 148
            T+REL+Y    +    + +Q  ++ +I+ +  LL+ SR +L I++  RG++ G +    
Sbjct: 112 STKRELYY----EHKAVYGNQKYLDSSIKSICELLNESRANLNILSCGRGIIRGAITFLV 167

Query: 149 PNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIP- 207
            N  VID          +  D  L    ++ ++A +I+VVEK   FQ+L ++      P 
Sbjct: 168 ENVGVIDARV----QEVLITDALLFS--NIISEADFILVVEKDTTFQKLMDENFQAMFPR 221

Query: 208 SILITAKGYPDIATRFLLHRLN--RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEA 265
            IL T+KGYPDIATR +L  L+  R F   PI  L D +P G+ I  T+K+G      E 
Sbjct: 222 GILATSKGYPDIATRNVLKMLSEKRKF---PIYGLFDADPHGIEIYLTYKYGPTKEFAEG 278

Query: 266 Y-RYACNVKWLGLRGDDVQ--LIPEQSLLPLKPRDL-----QIARSLMSSEILQENYKEE 317
              +   ++W+GL   D     I +   LPL   D       I RS+   EI+      E
Sbjct: 279 RGAFVPTIEWIGLFPTDFHRFTIDQSQCLPLVRTDFVKIEKMIPRSIQLGEIV---VTRE 335

Query: 318 LSLMVHNGQRAEVEALYFHGYDYLGKYI 345
           L  M+ N  + E+E++   G +Y+ +++
Sbjct: 336 LDWMIQNKFKMELESINMCGQEYMARFL 363

Required for meiotic recombination. Mediates DNA cleavage that forms the double-strand breaks (DSB) that initiate meiotic recombination.

Caenorhabditis elegans (taxid: 6239)

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	355
297742243	381	unnamed protein product [Vitis vinifera]	0.997	0.929	0.816	1e-173
356540428	382	PREDICTED: meiotic recombination protein	1.0	0.929	0.791	1e-167
30696943	383	meiotic recombination protein SPO11-2 [A	0.997	0.924	0.771	1e-165
297836981	383	hypothetical protein ARALYDRAFT_474957 [	0.997	0.924	0.762	1e-164
357481549	390	Meiotic recombination protein SPO11-2 [M	1.0	0.910	0.765	1e-164
449452446	384	PREDICTED: meiotic recombination protein	1.0	0.924	0.769	1e-159
357139785	382	PREDICTED: meiotic recombination protein	1.0	0.929	0.676	1e-143
449501862	346	PREDICTED: meiotic recombination protein	0.876	0.898	0.784	1e-139
53125146	385	topoisomerase 6 subunit A [Oryza sativa	1.0	0.922	0.644	1e-136
115474861	385	Os08g0156900 [Oryza sativa Japonica Grou	1.0	0.922	0.641	1e-135

>gi|297742243|emb|CBI34392.3| unnamed protein product [Vitis vinifera]

 Score =  613 bits (1580), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 289/354 (81%), Positives = 329/354 (92%)

Query: 2   RARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLT 61
           RARIEV+V+NFLKILNSP PAISDLPLI+R+ SNSRV++GLLT+VS IFLSHSFCTRSL 
Sbjct: 28  RARIEVAVLNFLKILNSPSPAISDLPLISRRWSNSRVNRGLLTEVSCIFLSHSFCTRSLM 87

Query: 62  KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIA 121
           + NAAKAFVRVWKV+E CFQIL QEKRVTQRELFYKLLC SP+YFT QLQVNRTIQDV+A
Sbjct: 88  RPNAAKAFVRVWKVVEMCFQILVQEKRVTQRELFYKLLCSSPQYFTCQLQVNRTIQDVVA 147

Query: 122 LLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTD 181
           LL CSR+SLGI+ASSRG V GRL+LQ    E +DCSACGSSG++ISGD++LLE++ +KTD
Sbjct: 148 LLRCSRYSLGIMASSRGAVTGRLLLQAFISETVDCSACGSSGHAISGDMNLLERMVMKTD 207

Query: 182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
           ARYIIVVEKHAIFQRL ED VFNQIPSILITAKGYPDIATRFLL+R++RAFPDLPILALV
Sbjct: 208 ARYIIVVEKHAIFQRLAEDRVFNQIPSILITAKGYPDIATRFLLYRMSRAFPDLPILALV 267

Query: 242 DWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
           DWNPAGLAILCTFKFGSIGMG+EAYRYACNVKWLGLRGDD+QLIPE+SL+PLKPRDLQIA
Sbjct: 268 DWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWLGLRGDDLQLIPEESLIPLKPRDLQIA 327

Query: 302 RSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           +SL SSEIL+ENY+ EL +MV +G+RAE+EALYF GY++LGKYIAKKIVQA+Y+
Sbjct: 328 KSLKSSEILEENYRNELEVMVQSGRRAEIEALYFRGYNFLGKYIAKKIVQANYV 381

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356540428|ref|XP_003538691.1| PREDICTED: meiotic recombination protein SPO11-2-like [Glycine max]

 Score =  592 bits (1527), Expect = e-167,   Method: Compositional matrix adjust.
 Identities = 281/355 (79%), Positives = 322/355 (90%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           VRARIEVSV+NFLKILN+  PAISDLPLI RK SNSRV+ GLLT++S +FLS+S  TRSL
Sbjct: 28  VRARIEVSVLNFLKILNASSPAISDLPLIQRKYSNSRVNHGLLTELSRVFLSNSVSTRSL 87

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
            + NAAKAFVRVWKVME C+QIL QEKRVTQRELFYKLLCDSP  F SQ  VNRTIQD++
Sbjct: 88  MRPNAAKAFVRVWKVMEMCYQILLQEKRVTQRELFYKLLCDSPHLFPSQTHVNRTIQDLV 147

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
           ALL CSRFSLGI+ASSRGLVAGRL+LQEP +E +DCS CGSSG++ISGDL+LL+ L L  
Sbjct: 148 ALLRCSRFSLGIMASSRGLVAGRLILQEPGKEAVDCSLCGSSGFAISGDLNLLDSLVLNA 207

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DARY+I+VEKHAIFQRLTED  F+QIPSILITAKGYPDIATRFLL+R+++AFPDLPILAL
Sbjct: 208 DARYVIIVEKHAIFQRLTEDRFFHQIPSILITAKGYPDIATRFLLYRISKAFPDLPILAL 267

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQI 300
           VDWNPAGLAILCTFKFGSIGMG+EAYRYACNVKWLGLRG D+ L+P QS +PLKP+DLQI
Sbjct: 268 VDWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWLGLRGHDLPLLPNQSFVPLKPKDLQI 327

Query: 301 ARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           A+SLMSS ILQ+NYKEE++LMV +G+RAE+EALYF+GYDYLGKYIAKKIVQ+DY+
Sbjct: 328 AQSLMSSGILQDNYKEEVALMVQSGRRAEIEALYFNGYDYLGKYIAKKIVQSDYV 382

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30696943|ref|NP_176582.2| meiotic recombination protein SPO11-2 [Arabidopsis thaliana] gi|75335899|sp|Q9M4A1.1|SPO12_ARATH RecName: Full=Meiotic recombination protein SPO11-2; Short=AtSPO11-2 gi|7270977|emb|CAB81545.1| putative topoisomerase VIA [Arabidopsis thaliana] gi|91806019|gb|ABE65738.1| DNA topoisomerase VIA [Arabidopsis thaliana] gi|332196057|gb|AEE34178.1| meiotic recombination protein SPO11-2 [Arabidopsis thaliana]

 Score =  587 bits (1513), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 273/354 (77%), Positives = 315/354 (88%)

Query: 2   RARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLT 61
           RARIEVSV+N L+ILNSPDPAISDL LINRK SNS +++G+LTDVS+IFLS SF   SLT
Sbjct: 30  RARIEVSVLNLLRILNSPDPAISDLSLINRKRSNSCINKGILTDVSYIFLSTSFTKSSLT 89

Query: 62  KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIA 121
            +  AKAFVRVWKVME CFQIL QEKRVTQRELFYKLLCDSP+YF+SQ++VNR++QDV+A
Sbjct: 90  NAKTAKAFVRVWKVMEICFQILLQEKRVTQRELFYKLLCDSPDYFSSQIEVNRSVQDVVA 149

Query: 122 LLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTD 181
           LL CSR+SLGI+ASSRGLVAGRL LQEP +E +DCSACGSSG++I+GDL+LL+   ++TD
Sbjct: 150 LLRCSRYSLGIMASSRGLVAGRLFLQEPGKEAVDCSACGSSGFAITGDLNLLDNTIMRTD 209

Query: 182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
           ARYII+VEKHAIF RL ED VFN IP + ITAKGYPDIATRF LHR++  FPDLPIL LV
Sbjct: 210 ARYIIIVEKHAIFHRLVEDRVFNHIPCVFITAKGYPDIATRFFLHRMSTTFPDLPILVLV 269

Query: 242 DWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
           DWNPAGLAILCTFKFGSIGMG+EAYRYACNVKW+GLRGDD+ LIPE+SL+PLKP+D QIA
Sbjct: 270 DWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWIGLRGDDLNLIPEESLVPLKPKDSQIA 329

Query: 302 RSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           +SL+SS+ILQENY EELSLMV  G+RAE+EALY HGY+YLGKYIA KIVQ  YI
Sbjct: 330 KSLLSSKILQENYIEELSLMVQTGKRAEIEALYCHGYNYLGKYIATKIVQGKYI 383

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297836981|ref|XP_002886372.1| hypothetical protein ARALYDRAFT_474957 [Arabidopsis lyrata subsp. lyrata] gi|297332213|gb|EFH62631.1| hypothetical protein ARALYDRAFT_474957 [Arabidopsis lyrata subsp. lyrata]

 Score =  583 bits (1504), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 270/354 (76%), Positives = 316/354 (89%)

Query: 2   RARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLT 61
           RARIEVSV+N L+ILNSPDPAISDL LINRK SNS ++QG+LTDVS+IFLS SF   SLT
Sbjct: 30  RARIEVSVLNLLRILNSPDPAISDLSLINRKRSNSCINQGILTDVSYIFLSTSFTKSSLT 89

Query: 62  KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIA 121
            +  AK FVRVWKVME CFQIL QEKRVTQRELFYKLLCDSP+YF+SQ++VNRT+QDV+A
Sbjct: 90  NAKTAKTFVRVWKVMEICFQILLQEKRVTQRELFYKLLCDSPDYFSSQIEVNRTVQDVVA 149

Query: 122 LLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTD 181
           LL CSR+SLGI+ASSRGLVAGRL LQEP +E +DCSACGSSG++I+GDL+LL+   +++D
Sbjct: 150 LLRCSRYSLGIMASSRGLVAGRLFLQEPGKEAVDCSACGSSGFTITGDLNLLDNTIMRSD 209

Query: 182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
           ARYII+VEKHAIF RL ED VFN IP + ITAKGYPDIATRF LHR++  FP+LPILALV
Sbjct: 210 ARYIIIVEKHAIFHRLVEDRVFNHIPCVFITAKGYPDIATRFFLHRMSTTFPNLPILALV 269

Query: 242 DWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
           DWNPAGLAILCTFKFGSIGMG+EAYRYACNVKW+GLRGDD+ LIP++SL+PLKP+D QIA
Sbjct: 270 DWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWIGLRGDDLNLIPDESLVPLKPKDSQIA 329

Query: 302 RSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           +SL+SS+ILQ+NY++ELSLMV  G+RAE+EALY HGY+YLGKYIA KIVQ  YI
Sbjct: 330 KSLLSSKILQDNYRDELSLMVQTGKRAEIEALYCHGYNYLGKYIATKIVQGKYI 383

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357481549|ref|XP_003611060.1| Meiotic recombination protein SPO11-2 [Medicago truncatula] gi|355512395|gb|AES94018.1| Meiotic recombination protein SPO11-2 [Medicago truncatula]

 Score =  583 bits (1502), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 278/363 (76%), Positives = 322/363 (88%), Gaps = 8/363 (2%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           VRARIEVSV++FLKILN+ +PAISDLPLI RKSSNSRV+ GLLT++S++FLS+S  TRSL
Sbjct: 28  VRARIEVSVLSFLKILNASNPAISDLPLIQRKSSNSRVNHGLLTELSYVFLSNSVSTRSL 87

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
            + NAAKAFVRVWKVME C+QIL QEKRVTQRELFYKLLC S   F SQ  VNRTIQD++
Sbjct: 88  MRPNAAKAFVRVWKVMEMCYQILLQEKRVTQRELFYKLLCHSQHLFPSQKDVNRTIQDLV 147

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
           ALL CSR+SLGI+ASSRG++AGRL+LQEP +E +DCS CGSSG++ISGDL+LL+KL L  
Sbjct: 148 ALLRCSRYSLGIMASSRGIIAGRLILQEPGKEAVDCSVCGSSGHAISGDLNLLDKLILNA 207

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DARYII+VEKHAIFQRL ED  FNQIPSILITAKGYPDIATRFLLHR++RAFPDLPILAL
Sbjct: 208 DARYIIIVEKHAIFQRLAEDRFFNQIPSILITAKGYPDIATRFLLHRISRAFPDLPILAL 267

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQI 300
           VDWNPAGLAILCTFKFGS+GMG+E+YRYACNVKWLGLRG D+ ++P+QS +PLK +DLQI
Sbjct: 268 VDWNPAGLAILCTFKFGSVGMGLESYRYACNVKWLGLRGHDLPMLPDQSFVPLKTKDLQI 327

Query: 301 ARSLMSSEI--------LQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQA 352
           A+SLMSS I        L ENYKEE++LMV +G+RAE+EALYFHGYDYLGKYIAKKIVQ+
Sbjct: 328 AQSLMSSRILPVSHSEPLNENYKEEVTLMVESGRRAEIEALYFHGYDYLGKYIAKKIVQS 387

Query: 353 DYI 355
           DYI
Sbjct: 388 DYI 390

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449452446|ref|XP_004143970.1| PREDICTED: meiotic recombination protein SPO11-2-like [Cucumis sativus]

 Score =  565 bits (1457), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 273/355 (76%), Positives = 322/355 (90%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           V ARI+V+V+NFL+ILNS  PAIS+LPLI+R+SSNSRVSQG+LTD SWIFLSHSFCTRSL
Sbjct: 30  VVARIQVAVLNFLRILNSSSPAISNLPLIDRRSSNSRVSQGILTDDSWIFLSHSFCTRSL 89

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
            + NA+KAFVRVWK+ME C QIL Q+K+VTQRELFYKLLCDSP YF++QL VNRTIQDV+
Sbjct: 90  MRPNASKAFVRVWKLMEMCSQILIQDKKVTQRELFYKLLCDSPVYFSTQLHVNRTIQDVV 149

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
           ALL CSR+SLGI+ASSRGLVAGRL+LQEP QEV+DC+ACGSSGY ISGDL LL+ L LKT
Sbjct: 150 ALLQCSRYSLGIMASSRGLVAGRLLLQEPEQEVVDCTACGSSGYPISGDLDLLQTLTLKT 209

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DARYIIV+EKHAIFQRL +D VFN+IPSILITAKGYPD+ATR+ LH++ + F  LP+  L
Sbjct: 210 DARYIIVIEKHAIFQRLADDRVFNRIPSILITAKGYPDLATRYFLHKICKTFSHLPMFGL 269

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQI 300
           VDWNPAGLAILCTFK+GSIGMG+EAYRYACNVKWLG+RGDD+QLIP++SL+PLKPRDLQI
Sbjct: 270 VDWNPAGLAILCTFKYGSIGMGLEAYRYACNVKWLGVRGDDLQLIPQESLVPLKPRDLQI 329

Query: 301 ARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           A+SL+SS+ILQENY++EL+LMV  GQ+AE+EALY +G+DYL KYI KKI+Q  YI
Sbjct: 330 AKSLLSSKILQENYRQELTLMVERGQKAELEALYHNGFDYLEKYIVKKIIQFSYI 384

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357139785|ref|XP_003571458.1| PREDICTED: meiotic recombination protein SPO11-2-like [Brachypodium distachyon]

 Score =  513 bits (1322), Expect = e-143,   Method: Compositional matrix adjust.
 Identities = 241/356 (67%), Positives = 301/356 (84%), Gaps = 1/356 (0%)

Query: 1   VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRS 59
           VRARIEV+V+NFL  L+SP  PAIS LPLI RKSSN  +  GLL+DVS ++LS++FC RS
Sbjct: 27  VRARIEVAVLNFLAALSSPSSPAISVLPLIARKSSNCSLRSGLLSDVSSVYLSYAFCKRS 86

Query: 60  LTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDV 119
           LT+ N AK+FVRVWKVME C++IL + K VTQRELFYKLL DSP+YFT Q  VN+TIQDV
Sbjct: 87  LTRENDAKSFVRVWKVMEMCYKILGEGKLVTQRELFYKLLSDSPKYFTCQRHVNQTIQDV 146

Query: 120 IALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLK 179
           ++LL C+R SLGI+ASSRG + GRL+L EP  E IDCS  G SG++I+GDL+ L KL+L 
Sbjct: 147 VSLLRCTRQSLGIMASSRGALIGRLLLHEPEGEHIDCSILGPSGHAITGDLNQLSKLNLY 206

Query: 180 TDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA 239
           +DARY+I+VEK A+FQRL ED ++NQ+P I+ITAKGYPDIATRF+LHRL++ FP++PI A
Sbjct: 207 SDARYLILVEKDAVFQRLAEDRLYNQLPCIVITAKGYPDIATRFILHRLSQTFPNMPIFA 266

Query: 240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQ 299
           LVDWNPAGLAILCT+K+GSI MG+E+YRYACNVKWLG+RGDD++LIP+ +   LKPRDLQ
Sbjct: 267 LVDWNPAGLAILCTYKYGSISMGLESYRYACNVKWLGIRGDDLELIPQSAFQELKPRDLQ 326

Query: 300 IARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           IA+ LMSS+ LQ+ ++ EL+LMV  G+RAE+EALY HG+D+LGKYIA+KIVQ DYI
Sbjct: 327 IAKGLMSSKFLQDKHRAELALMVEMGKRAEIEALYCHGFDFLGKYIARKIVQGDYI 382

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449501862|ref|XP_004161479.1| PREDICTED: meiotic recombination protein SPO11-2-like [Cucumis sativus]

 Score =  501 bits (1291), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 244/311 (78%), Positives = 285/311 (91%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
           V ARI+V+V+NFL+ILNS  PAIS+LPLI+R+SSNSRVSQG+LTD SWIFLSHSFCTRSL
Sbjct: 30  VVARIQVAVLNFLRILNSSSPAISNLPLIDRRSSNSRVSQGILTDDSWIFLSHSFCTRSL 89

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
            + NA+KAFVRVWK+ME C QIL Q+K+VTQRELFYKLLCDSP YF++QL VNRTIQDV+
Sbjct: 90  MRPNASKAFVRVWKLMEMCSQILIQDKKVTQRELFYKLLCDSPVYFSTQLHVNRTIQDVV 149

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
           ALL CSR+SLGI+ASSRGLVAGRL+LQEP QEV+DC+ACGSSGY ISGDL LL+ L LKT
Sbjct: 150 ALLQCSRYSLGIMASSRGLVAGRLLLQEPEQEVVDCTACGSSGYPISGDLDLLQTLTLKT 209

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DARYIIV+EKHAIFQRL +D VFN+IPSILITAKGYPD+ATR+ LH++ + F  LP+  L
Sbjct: 210 DARYIIVIEKHAIFQRLADDRVFNRIPSILITAKGYPDLATRYFLHKICKTFSHLPMFGL 269

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQI 300
           VDWNPAGLAILCTFK+GSIGMG+EAYRYACNVKWLG+RGDD+QLIP++SL+PLKPRDLQI
Sbjct: 270 VDWNPAGLAILCTFKYGSIGMGLEAYRYACNVKWLGVRGDDLQLIPQESLVPLKPRDLQI 329

Query: 301 ARSLMSSEILQ 311
           A+SL+SS+ILQ
Sbjct: 330 AKSLLSSKILQ 340

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|53125146|emb|CAE53723.1| topoisomerase 6 subunit A [Oryza sativa Indica Group]

 Score =  489 bits (1260), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 230/357 (64%), Positives = 295/357 (82%), Gaps = 2/357 (0%)

Query: 1   VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLL-TDVSWIFLSHSFCTR 58
           VRARIEV+V+NFL  L  P  PAIS LPLI+R ++N  + + LL  DVS ++LS++ C R
Sbjct: 29  VRARIEVAVLNFLAALTDPAAPAISALPLISRGAANRGLRRALLRDDVSSVYLSYASCKR 88

Query: 59  SLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQD 118
           SLT++N AKAFVRVWKVME C++IL + K VT RELFY LL +SP YFT Q  VN+T+QD
Sbjct: 89  SLTRANDAKAFVRVWKVMEMCYKILGEGKLVTLRELFYTLLSESPTYFTCQRHVNQTVQD 148

Query: 119 VIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDL 178
           V++LL C+R SLGI+ASSRG + GRL+LQ P +E +DCS  G SG++I+GDL++L KL  
Sbjct: 149 VVSLLRCTRQSLGIMASSRGALIGRLVLQGPEEEHVDCSILGPSGHAITGDLNVLSKLIF 208

Query: 179 KTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPIL 238
            +DARYIIVVEK AIFQRL ED +++ +P ILITAKGYPD+ATRF+LHRL++ +P++PI 
Sbjct: 209 SSDARYIIVVEKDAIFQRLAEDRIYSHLPCILITAKGYPDLATRFILHRLSQTYPNMPIF 268

Query: 239 ALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDL 298
           ALVDWNPAGLAILCT+K+GSI MG+E+YRYACNVKWLGLRGDD+QLIP+ +   LKPRDL
Sbjct: 269 ALVDWNPAGLAILCTYKYGSISMGLESYRYACNVKWLGLRGDDLQLIPQSAYQELKPRDL 328

Query: 299 QIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           QIA+SL+SS+ LQ+ ++ EL+LM+  G+RAE+EALY HG+D+LGKY+A+KIVQ DYI
Sbjct: 329 QIAKSLLSSKFLQDKHRAELTLMLETGKRAEIEALYSHGFDFLGKYVARKIVQGDYI 385

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115474861|ref|NP_001061027.1| Os08g0156900 [Oryza sativa Japonica Group] gi|37805855|dbj|BAC99506.1| putative SPO11 protein [Oryza sativa Japonica Group] gi|113622996|dbj|BAF22941.1| Os08g0156900 [Oryza sativa Japonica Group] gi|150371043|dbj|BAF65345.1| topoisomerase Spo11 [Oryza sativa Japonica Group]

 Score =  488 bits (1257), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 229/357 (64%), Positives = 295/357 (82%), Gaps = 2/357 (0%)

Query: 1   VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLL-TDVSWIFLSHSFCTR 58
           VRARIEV+V+NFL  L  P  PAIS LPLI+R ++N  + + LL  DVS ++LS++ C R
Sbjct: 29  VRARIEVAVLNFLAALTDPAAPAISALPLISRGAANRGLRRALLRDDVSSVYLSYASCKR 88

Query: 59  SLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQD 118
           SLT++N AKAFVRVWKVME C++IL + K VT RELFY LL +SP YFT Q  VN+T+QD
Sbjct: 89  SLTRANDAKAFVRVWKVMEMCYKILGEGKLVTLRELFYTLLSESPTYFTCQRHVNQTVQD 148

Query: 119 VIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDL 178
           V++LL C+R SLGI+ASSRG + GRL++Q P +E +DCS  G SG++I+GDL++L KL  
Sbjct: 149 VVSLLRCTRQSLGIMASSRGALIGRLVVQGPEEEHVDCSILGPSGHAITGDLNVLSKLIF 208

Query: 179 KTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPIL 238
            +DARYIIVVEK AIFQRL ED +++ +P ILITAKGYPD+ATRF+LHRL++ +P++PI 
Sbjct: 209 SSDARYIIVVEKDAIFQRLAEDRIYSHLPCILITAKGYPDLATRFILHRLSQTYPNMPIF 268

Query: 239 ALVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDL 298
           ALVDWNPAGLAILCT+K+GSI MG+E+YRYACNVKWLGLRGDD+QLIP+ +   LKPRDL
Sbjct: 269 ALVDWNPAGLAILCTYKYGSISMGLESYRYACNVKWLGLRGDDLQLIPQSAYQELKPRDL 328

Query: 299 QIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           QIA+SL+SS+ LQ+ ++ EL+LM+  G+RAE+EALY HG+D+LGKY+A+KIVQ DYI
Sbjct: 329 QIAKSLLSSKFLQDKHRAELTLMLETGKRAEIEALYSHGFDFLGKYVARKIVQGDYI 385

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	355
TAIR|locus:2024598	383	SPO11-2 "sporulation 11-2" [Ar	0.997	0.924	0.771	3.4e-148
TAIR|locus:2151221	427	RHL2 "ROOT HAIRLESS 2" [Arabid	0.960	0.798	0.315	3e-46
UNIPROTKB|Q9Y5K1	396	SPO11 "Meiotic recombination p	0.811	0.727	0.330	1.7e-41
UNIPROTKB|E2RT15	396	SPO11 "Uncharacterized protein	0.816	0.732	0.324	5.9e-41
MGI|MGI:1349669	396	Spo11 "SPO11 meiotic protein c	0.805	0.722	0.322	3.3e-40
UNIPROTKB|Q5TCH7	354	SPO11 "Meiotic recombination p	0.853	0.855	0.311	1.1e-39
UNIPROTKB|A5GFN4	357	SPO11 "SPO11 meiotic protein c	0.808	0.803	0.326	3.7e-39
UNIPROTKB|A5GFN5	395	SPO11 "Uncharacterized protein	0.808	0.726	0.326	3.7e-39
UNIPROTKB|E1BMM6	395	SPO11 "Uncharacterized protein	0.808	0.726	0.316	4.8e-39
ZFIN|ZDB-GENE-040426-1900	383	spo11 "SPO11 meiotic protein c	0.952	0.882	0.313	3.9e-37

TAIR|locus:2024598 SPO11-2 "sporulation 11-2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1447 (514.4 bits), Expect = 3.4e-148, P = 3.4e-148
 Identities = 273/354 (77%), Positives = 315/354 (88%)

Query:     2 RARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLT 61
             RARIEVSV+N L+ILNSPDPAISDL LINRK SNS +++G+LTDVS+IFLS SF   SLT
Sbjct:    30 RARIEVSVLNLLRILNSPDPAISDLSLINRKRSNSCINKGILTDVSYIFLSTSFTKSSLT 89

Query:    62 KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIA 121
              +  AKAFVRVWKVME CFQIL QEKRVTQRELFYKLLCDSP+YF+SQ++VNR++QDV+A
Sbjct:    90 NAKTAKAFVRVWKVMEICFQILLQEKRVTQRELFYKLLCDSPDYFSSQIEVNRSVQDVVA 149

Query:   122 LLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTD 181
             LL CSR+SLGI+ASSRGLVAGRL LQEP +E +DCSACGSSG++I+GDL+LL+   ++TD
Sbjct:   150 LLRCSRYSLGIMASSRGLVAGRLFLQEPGKEAVDCSACGSSGFAITGDLNLLDNTIMRTD 209

Query:   182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
             ARYII+VEKHAIF RL ED VFN IP + ITAKGYPDIATRF LHR++  FPDLPIL LV
Sbjct:   210 ARYIIIVEKHAIFHRLVEDRVFNHIPCVFITAKGYPDIATRFFLHRMSTTFPDLPILVLV 269

Query:   242 DWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
             DWNPAGLAILCTFKFGSIGMG+EAYRYACNVKW+GLRGDD+ LIPE+SL+PLKP+D QIA
Sbjct:   270 DWNPAGLAILCTFKFGSIGMGLEAYRYACNVKWIGLRGDDLNLIPEESLVPLKPKDSQIA 329

Query:   302 RSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
             +SL+SS+ILQENY EELSLMV  G+RAE+EALY HGY+YLGKYIA KIVQ  YI
Sbjct:   330 KSLLSSKILQENYIEELSLMVQTGKRAEIEALYCHGYNYLGKYIATKIVQGKYI 383

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003824 "catalytic activity" evidence=IEA

GO:0003918 "DNA topoisomerase type II (ATP-hydrolyzing) activity" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005694 "chromosome" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA;ISS

GO:0006265 "DNA topological change" evidence=ISS

GO:0007126 "meiosis" evidence=IMP

GO:0009553 "embryo sac development" evidence=IMP

GO:0009555 "pollen development" evidence=IMP

GO:0048316 "seed development" evidence=IMP

GO:0048437 "floral organ development" evidence=IMP

GO:0042138 "meiotic DNA double-strand break formation" evidence=IGI;RCA

GO:0051026 "chiasma assembly" evidence=IMP

GO:0006302 "double-strand break repair" evidence=RCA

GO:0006312 "mitotic recombination" evidence=RCA

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0007155 "cell adhesion" evidence=RCA

GO:0010090 "trichome morphogenesis" evidence=RCA

GO:0010332 "response to gamma radiation" evidence=RCA

GO:0032204 "regulation of telomere maintenance" evidence=RCA

GO:0032504 "multicellular organism reproduction" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0043247 "telomere maintenance in response to DNA damage" evidence=RCA

GO:0045010 "actin nucleation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

GO:0048765 "root hair cell differentiation" evidence=RCA

GO:0071555 "cell wall organization" evidence=RCA

TAIR|locus:2151221 RHL2 "ROOT HAIRLESS 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 485 (175.8 bits), Expect = 3.0e-46, P = 3.0e-46
 Identities = 114/361 (31%), Positives = 200/361 (55%)

Query:     1 VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
             V+  IE  ++   + + + D     +P  +R +SN    Q  + ++  I L      R  
Sbjct:    81 VQTEIETVIVQIARSILAGDGFSFSVP--SRAASN----QLYVPELDRIVLKDKSTLRPF 134

Query:    61 TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
                ++ +      +++    Q+  +   VT+R+LFY       + F  Q Q +  + DV 
Sbjct:   135 ASVSSVRKTTITTRILALIHQLCLRNIHVTKRDLFYT----DVKLFQDQTQSDAVLDDVS 190

Query:   121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
              +L C+R SL ++A+ +G+V GRL+  + N ++IDC+  G  G +I  ++  +   D+++
Sbjct:   191 CMLGCTRSSLNVIAAEKGVVVGRLIFSD-NGDMIDCTKMGMGGKAIPPNIDRVG--DMQS 247

Query:   181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
             DA +I++VEK A + RL ED  +N+ P I++TAKG PD+ATR  L ++      LP+LAL
Sbjct:   248 DAMFILLVEKDAAYMRLAEDRFYNRFPCIIVTAKGQPDVATRLFLRKMKMELK-LPVLAL 306

Query:   241 VDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQL--IPEQSLLPLKPRD 297
             VD +P GL IL  +  GS  M  ++      ++KWLG+R  D+    IPEQ  LP+  +D
Sbjct:   307 VDSDPYGLKILSVYGCGSKNMSYDSANLTTPDIKWLGIRPSDLDKYKIPEQCRLPMTEQD 366

Query:   298 LQIARSLMSSEILQEN--YKEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKKIVQADY 354
             ++  + ++  + +++N  + EEL+LMV   Q+AE++AL   G+ YL + Y+  K+ Q D+
Sbjct:   367 IKTGKDMLEEDFVKKNPGWVEELNLMVKTKQKAEIQALSSFGFQYLSEVYLPLKLQQQDW 426

Query:   355 I 355
             +
Sbjct:   427 L 427

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003824 "catalytic activity" evidence=IEA

GO:0003918 "DNA topoisomerase type II (ATP-hydrolyzing) activity" evidence=IEA;ISS;TAS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005694 "chromosome" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA;ISS

GO:0006265 "DNA topological change" evidence=IEA;ISS

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical protein binding" evidence=IPI

GO:0009957 "epidermal cell fate specification" evidence=IMP

UNIPROTKB|Q9Y5K1 SPO11 "Meiotic recombination protein SPO11" [Homo sapiens (taxid:9606)]

 Score = 440 (159.9 bits), Expect = 1.7e-41, P = 1.7e-41
 Identities = 101/306 (33%), Positives = 180/306 (58%)

Query:    54 SFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQL 110
             S CT    KS++ K+   F  + K++   ++++      T+R+++Y    DS + F +Q 
Sbjct:    93 SHCTTRKIKSDSPKSAQKFSLILKILSMIYKLVQSNTYATKRDIYYT---DS-QLFGNQT 148

Query:   111 QVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
              V+  I D+  +L  SR SL I+++S+GL+AG L   E +   ++C+ CG++  ++  ++
Sbjct:   149 VVDNIINDISCMLKVSRRSLHILSTSKGLIAGNLRYIEEDGTKVNCT-CGATAVAVPSNI 207

Query:   171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLN 229
               +   +L TDA+++++VEK A FQRL +D   N++ P I+IT KG PD+ TR L+ +L 
Sbjct:   208 QGIR--NLVTDAKFVLIVEKDATFQRLLDDNFCNKLSPCIMITGKGVPDLNTRLLVKKLW 265

Query:   230 RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQL--IP 286
               F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   +P
Sbjct:   266 DTF-HVPVFTLVDADPHGIEIMCIYKYGSMSMSFEAHHLTVPAIRWLGLLPSDLKRLNVP 324

Query:   287 EQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK- 343
             + SL+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL + 
Sbjct:   325 KDSLIPLTKRDQMKLDSILRRPYVTCQPFWRKEMEIMADSKMKAEIQALTFLSSDYLSRV 384

Query:   344 YIAKKI 349
             Y+  K+
Sbjct:   385 YLPNKL 390

GO:0005524 "ATP binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000238 "zygotene" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0034502 "protein localization to chromosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0007283 "spermatogenesis" evidence=TAS

GO:0007292 "female gamete generation" evidence=TAS

UNIPROTKB|E2RT15 SPO11 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 435 (158.2 bits), Expect = 5.9e-41, P = 5.9e-41
 Identities = 100/308 (32%), Positives = 179/308 (58%)

Query:    51 LSHSFCTRSLTKSN--AAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTS 108
             ++H F TR +   +  + K F  + K++   ++++      T+R+++Y    DS + F +
Sbjct:    92 VTH-FTTRKIKSDSLKSVKKFALILKILSKIYKLVQSNTYATKRDIYYT---DS-QLFGN 146

Query:   109 QLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISG 168
             Q  V+  I D+  +L   R SL I+++S+GL+AG L   E +   + C+ CG++  ++  
Sbjct:   147 QTVVDNIINDISCMLKVPRMSLHILSTSKGLIAGNLRYIEEDGTRVHCT-CGATAVAVPS 205

Query:   169 DLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHR 227
             ++  +   +L TDA+++++VEK A FQRL +D   N++ P I+IT KG PD+ TR L+ +
Sbjct:   206 NIQGIR--NLITDAKFLLIVEKDATFQRLLDDNFCNRMSPCIMITGKGVPDLNTRLLVKK 263

Query:   228 LNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQL-- 284
             L   F  +P+ ALVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   
Sbjct:   264 LWDTF-HIPVFALVDADPHGIEIMCIYKYGSMAMSFEAHNLTVPAIRWLGLLPSDIKRLN 322

Query:   285 IPEQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLG 342
             IP  +L+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL 
Sbjct:   323 IPRDTLIPLTKRDQMKLDSVLKRPYVTCQPFWRKEMEIMADSKMKAEIQALTFLSSDYLS 382

Query:   343 K-YIAKKI 349
             + Y+  K+
Sbjct:   383 RVYLPNKL 390

GO:0034502 "protein localization to chromosome" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000238 "zygotene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

MGI|MGI:1349669 Spo11 "SPO11 meiotic protein covalently bound to DSB homolog (S. cerevisiae)" [Mus musculus (taxid:10090)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 98/304 (32%), Positives = 173/304 (56%)

Query:    56 CTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQV 112
             CT    +S++ K+   F  + KV+   ++++  +   T+R+++Y    DS + F +Q  V
Sbjct:    95 CTTRKIRSDSPKSVKKFALILKVLSMIYKLIQSDTYATKRDIYYT---DS-QLFGNQAAV 150

Query:   113 NRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSL 172
             +  I D+  +L   R SL ++++S+GL+AG L   E +   + C+ C ++  ++  ++  
Sbjct:   151 DSAIDDISCMLKVPRRSLHVLSTSKGLIAGNLRYMEEDGTRVQCT-CSATATAVPTNIQG 209

Query:   173 LEKLDLKTDARYIIVVEKHAIFQRLTED-FVFNQIPSILITAKGYPDIATRFLLHRLNRA 231
             ++ L   TDA+++++VEK A FQRL +D F     P I++T KG PD+ TR L+ +L   
Sbjct:   210 MQHLI--TDAKFLLIVEKDATFQRLLDDNFCSRMSPCIMVTGKGVPDLNTRLLVKKLWDT 267

Query:   232 FPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQL--IPEQ 288
             F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D+Q   IP+ 
Sbjct:   268 F-HIPVFTLVDADPYGIEIMCIYKYGSMSMSFEAHNLTIPTIRWLGLLPSDIQRLNIPKD 326

Query:   289 SLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK-YI 345
             SL+PL   D     S++    +  Q  +K+EL +M  +  +AE++AL     DYL + Y+
Sbjct:   327 SLIPLTKHDQMKLDSILKRPYITYQPLWKKELEMMADSKMKAEIQALTLLSSDYLSRVYL 386

Query:   346 AKKI 349
               K+
Sbjct:   387 PNKL 390

GO:0000781 "chromosome, telomeric region" evidence=IDA

GO:0001541 "ovarian follicle development" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0007126 "meiosis" evidence=IEA

GO:0007129 "synapsis" evidence=IMP

GO:0007131 "reciprocal meiotic recombination" evidence=IMP

GO:0007141 "male meiosis I" evidence=IMP

GO:0007286 "spermatid development" evidence=IMP

GO:0016787 "hydrolase activity" evidence=IEA

GO:0034502 "protein localization to chromosome" evidence=IMP

UNIPROTKB|Q5TCH7 SPO11 "Meiotic recombination protein SPO11" [Homo sapiens (taxid:9606)]

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 102/327 (31%), Positives = 185/327 (56%)

Query:    33 SSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRV 89
             +  SR++      V    +SH  CT    KS++ K+   F  + K++   ++++      
Sbjct:    36 TGGSRLASRFEDSVGLQMVSH--CTTRKIKSDSPKSAQKFSLILKILSMIYKLVQSNTYA 93

Query:    90 TQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEP 149
             T+R+++Y    DS + F +Q  V+  I D+  +L  SR SL I+++S+GL+AG L   E 
Sbjct:    94 TKRDIYYT---DS-QLFGNQTVVDNIINDISCMLKVSRRSLHILSTSKGLIAGNLRYIEE 149

Query:   150 NQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PS 208
             +   ++C+ CG++  ++  ++  +       +A+++++VEK A FQRL +D   N++ P 
Sbjct:   150 DGTKVNCT-CGATAVAVPSNIQGIR------NAKFVLIVEKDATFQRLLDDNFCNKLSPC 202

Query:   209 ILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRY 268
             I+IT KG PD+ TR L+ +L   F  +P+  LVD +P G+ I+C +K+GS+ M  EA+  
Sbjct:   203 IMITGKGVPDLNTRLLVKKLWDTF-HVPVFTLVDADPHGIEIMCIYKYGSMSMSFEAHHL 261

Query:   269 ACN-VKWLGLRGDDVQL--IPEQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVH 323
                 ++WLGL   D++   +P+ SL+PL  RD     S++    +  Q  +++E+ +M  
Sbjct:   262 TVPAIRWLGLLPSDLKRLNVPKDSLIPLTKRDQMKLDSILRRPYVTCQPFWRKEMEIMAD 321

Query:   324 NGQRAEVEALYFHGYDYLGK-YIAKKI 349
             +  +AE++AL F   DYL + Y+  K+
Sbjct:   322 SKMKAEIQALTFLSSDYLSRVYLPNKL 348

GO:0003677 "DNA binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

UNIPROTKB|A5GFN4 SPO11 "SPO11 meiotic protein covalently bound to DSB-like (S. cerevisiae)" [Sus scrofa (taxid:9823)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 100/306 (32%), Positives = 177/306 (57%)

Query:    54 SFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQL 110
             S CT    KS++ K+   F  + K++   ++++      T+R+++Y    DS + F +Q 
Sbjct:    55 SHCTTRKIKSDSPKSVKNFALILKILSMIYKLVQSNTYATKRDIYYT---DS-QLFGNQT 110

Query:   111 QVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
              V+  I DV  +L   R SL I ++S+GL+AG L   E +   ++C AC ++  ++  ++
Sbjct:   111 VVDNIINDVSCMLKVPRRSLHIFSTSKGLIAGNLRYIEEDGTKVNC-ACATA-VAVPSNI 168

Query:   171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLN 229
               +   +L TDA+++++VEK A FQRL +D   N++ P I++T KG PD+ TR L+ +L 
Sbjct:   169 QGI--WNLITDAKFLLIVEKDATFQRLLDDNFCNKMSPCIMVTGKGVPDLNTRLLVKKLW 226

Query:   230 RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQL--IP 286
               F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   IP
Sbjct:   227 DTF-HIPVFTLVDADPHGIEIMCIYKYGSMAMSFEAHNLTVPAIRWLGLLPSDIKRLNIP 285

Query:   287 EQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK- 343
             + +L+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL + 
Sbjct:   286 KGTLIPLTKRDQMKLDSILKRPYVACQPFWRKEMEIMADSKMKAEIQALTFLSSDYLSRV 345

Query:   344 YIAKKI 349
             Y+  K+
Sbjct:   346 YLPNKL 351

GO:0034502 "protein localization to chromosome" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000238 "zygotene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|A5GFN5 SPO11 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 418 (152.2 bits), Expect = 3.7e-39, P = 3.7e-39
 Identities = 100/306 (32%), Positives = 177/306 (57%)

Query:    54 SFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQL 110
             S CT    KS++ K+   F  + K++   ++++      T+R+++Y    DS + F +Q 
Sbjct:    93 SHCTTRKIKSDSPKSVKNFALILKILSMIYKLVQSNTYATKRDIYYT---DS-QLFGNQT 148

Query:   111 QVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
              V+  I DV  +L   R SL I ++S+GL+AG L   E +   ++C AC ++  ++  ++
Sbjct:   149 VVDNIINDVSCMLKVPRRSLHIFSTSKGLIAGNLRYIEEDGTKVNC-ACATA-VAVPSNI 206

Query:   171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLN 229
               +   +L TDA+++++VEK A FQRL +D   N++ P I++T KG PD+ TR L+ +L 
Sbjct:   207 QGI--WNLITDAKFLLIVEKDATFQRLLDDNFCNKMSPCIMVTGKGVPDLNTRLLVKKLW 264

Query:   230 RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQL--IP 286
               F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   IP
Sbjct:   265 DTF-HIPVFTLVDADPHGIEIMCIYKYGSMAMSFEAHNLTVPAIRWLGLLPSDIKRLNIP 323

Query:   287 EQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK- 343
             + +L+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL + 
Sbjct:   324 KGTLIPLTKRDQMKLDSILKRPYVACQPFWRKEMEIMADSKMKAEIQALTFLSSDYLSRV 383

Query:   344 YIAKKI 349
             Y+  K+
Sbjct:   384 YLPNKL 389

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

UNIPROTKB|E1BMM6 SPO11 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 417 (151.9 bits), Expect = 4.8e-39, P = 4.8e-39
 Identities = 97/306 (31%), Positives = 177/306 (57%)

Query:    54 SFCTRSLTKSNAAKA---FVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQL 110
             S CT    KS++ K+   F  + K+    ++++      T+R+++Y    DS + F +Q 
Sbjct:    93 SHCTTRKIKSDSPKSVKNFALILKIFSMIYKLVQSNTYATKRDIYYT---DS-QLFGNQT 148

Query:   111 QVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
              V+  I D+  +L   R SL I+++S+GL+AG L   E +   ++C+   ++  ++  ++
Sbjct:   149 VVDNIINDISCMLKVPRRSLHILSTSKGLIAGDLKYLEEDGTKVNCTR--ATAVAVPSNI 206

Query:   171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLN 229
               ++  +L TDA+++++VEK A FQRL +D   N++ P I++T KG PD+ TR L+ +L 
Sbjct:   207 QGIQ--NLITDAKFLLIVEKDATFQRLLDDNFCNKMSPCIMVTGKGVPDVNTRLLIKKLW 264

Query:   230 RAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQL--IP 286
               F  +P+  LVD +P G+ I+C +K+GS+ M  EA+      ++WLGL   D++   IP
Sbjct:   265 DTF-HIPVFTLVDADPHGIEIMCIYKYGSMAMSFEAHNLTVPAIRWLGLLPSDIKRLNIP 323

Query:   287 EQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK- 343
             + +L+PL  RD     S++    +  Q  +++E+ +M  +  +AE++AL F   DYL + 
Sbjct:   324 KGTLIPLTKRDQMKLDSILKRPYITCQPFWRKEMEIMADSKMKAEIQALTFLSSDYLSRV 383

Query:   344 YIAKKI 349
             Y+  K+
Sbjct:   384 YLPNKL 389

GO:0034502 "protein localization to chromosome" evidence=IEA

GO:0007286 "spermatid development" evidence=IEA

GO:0007141 "male meiosis I" evidence=IEA

GO:0007131 "reciprocal meiotic recombination" evidence=IEA

GO:0001541 "ovarian follicle development" evidence=IEA

GO:0000781 "chromosome, telomeric region" evidence=IEA

GO:0000238 "zygotene" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

ZFIN|ZDB-GENE-040426-1900 spo11 "SPO11 meiotic protein covalently bound to DSB homolog (S. cerevisiae)" [Danio rerio (taxid:7955)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 115/367 (31%), Positives = 199/367 (54%)

Query:     1 VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNS---RVSQGLLT--DVSWIFLSHSF 55
             V  RIE  VI  + I  S   A   L LINR   N+   + S GL+   DVS  +L H  
Sbjct:    34 VLTRIE-KVIERIVIDVSKGEA-PVLRLINRSCWNNVRFQESVGLVLKDDVSPKYL-H-- 88

Query:    56 CTRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRT 115
             C +  T    A  F  + K++   ++++  +   T+R+++Y    + P+ F SQ  ++  
Sbjct:    89 CGKPTT----ATKFALILKILSIIYKLVQSDSYATKRDIYY----NDPQLFGSQRMLDSI 140

Query:   116 IQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEK 175
             + D+  +L   R SL I+A+S+G ++G L   E +   +DC++  S+  S+S +++ +  
Sbjct:   141 VDDISCMLKVPRRSLHILATSKGFISGDLCYLEEDGTKVDCNS-SSTAVSVSSNVNGIR- 198

Query:   176 LDLKTDARYIIVVEKHAIFQRLTED-FVFNQIPSILITAKGYPDIATRFLLHRLNRAFPD 234
              ++ + A++I++VEK A FQRL +D F     P I+IT KG PD+ +R ++ +L  A   
Sbjct:   199 -NIVSSAKFILIVEKDATFQRLLDDDFCARLSPCIIITGKGVPDVNSRLMVRKLWDAL-H 256

Query:   235 LPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQL--IPEQSLL 291
             +P+ ALVD +P G+ I+C +K+GS+ M  EA+     +V WLGL   D+Q   +PE++L+
Sbjct:   257 VPVFALVDADPHGIEIMCIYKYGSVSMAFEAHSLTVPSVLWLGLLPSDIQRYRVPEEALI 316

Query:   292 PLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKK 348
             P    D +   SL S   +  Q  ++ E+  M +  ++AE++ L      +L + Y+  K
Sbjct:   317 PFAKADERKISSLRSRSYITCQPTWEREVETMQNLKRKAEIQCLASIAPHFLTRVYLPNK 376

Query:   349 IVQADYI 355
             +    +I
Sbjct:   377 LRYGGWI 383

GO:0003677 "DNA binding" evidence=IEA

GO:0003824 "catalytic activity" evidence=IEA

GO:0005694 "chromosome" evidence=IEA

GO:0006259 "DNA metabolic process" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

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)
Q9M4A1	SPO12_ARATH	No assigned EC number	0.7711	0.9971	0.9242	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:
	GSVIVG00002537001	SubName- Full=Chromosome chr2 scaffold_132, whole genome shotgun sequence; (382 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00024669001	SubName- Full=Chromosome chr6 scaffold_3, whole genome shotgun sequence; (673 aa)	•		•		•		•		0.811
	GSVIVG00015236001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (850 aa)							•		0.400

---

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	355
PLN00060	384	PLN00060, PLN00060, meiotic recombination protein	0.0
COG1697	356	COG1697, COG1697, DNA topoisomerase VI, subunit A	6e-58
cd00223	160	cd00223, TOPRIM_TopoIIB_SPO, TOPRIM_TopoIIB_SPO: t	6e-56
PRK04342	367	PRK04342, PRK04342, DNA topoisomerase VI subunit A	1e-50
pfam04406	68	pfam04406, TP6A_N, Type IIB DNA topoisomerase	2e-13
cd00188	83	cd00188, TOPRIM, Topoisomerase-primase domain	5e-04

>gnl|CDD|177691 PLN00060, PLN00060, meiotic recombination protein SPO11-2; Provisional

 Score =  614 bits (1586), Expect = 0.0
 Identities = 262/356 (73%), Positives = 307/356 (86%), Gaps = 1/356 (0%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLL-TDVSWIFLSHSFCTRS 59
            RARIEV+V+NFL  LNSPDPAISDLPLI+R  SN  + +GLL  DVS IFLSH FC RS
Sbjct: 29  ARARIEVAVLNFLAALNSPDPAISDLPLISRNCSNVLLRRGLLQGDVSSIFLSHLFCKRS 88

Query: 60  LTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDV 119
           LTK+ +AKAFVRVWKVME C+QIL + K VTQRELFYKLLCDSPEYF+ Q  VN+T+QDV
Sbjct: 89  LTKAGSAKAFVRVWKVMEMCYQILGEGKLVTQRELFYKLLCDSPEYFSCQRHVNQTVQDV 148

Query: 120 IALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLK 179
           ++LL CSR+SLGI+ASSRG + GRL+LQEPN+E +DCS  G SG++I+GDL+LL  L L 
Sbjct: 149 VSLLRCSRYSLGIMASSRGALIGRLVLQEPNEEPVDCSILGISGHAITGDLNLLSNLILS 208

Query: 180 TDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA 239
           +DARYIIVVEK AIFQRL ED  FN IP ILITAKGYPD+ATRF+LHRL++ FP+LPILA
Sbjct: 209 SDARYIIVVEKDAIFQRLAEDRFFNHIPCILITAKGYPDLATRFILHRLSQTFPNLPILA 268

Query: 240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQ 299
           LVDWNPAGLAILCT+KFGSIGMG+EAYRYACNVKWLGLRGDD+QLIP ++ + LKPRDLQ
Sbjct: 269 LVDWNPAGLAILCTYKFGSIGMGLEAYRYACNVKWLGLRGDDLQLIPPEAFVELKPRDLQ 328

Query: 300 IARSLMSSEILQENYKEELSLMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI 355
           IA+SL+SS+ LQ  Y+EEL+LMV  G+RAE+EALY HGYDYLGKY+A+KIVQ DYI
Sbjct: 329 IAKSLLSSKFLQNRYREELTLMVQTGKRAEIEALYSHGYDYLGKYVARKIVQGDYI 384

Length = 384

>gnl|CDD|224611 COG1697, COG1697, DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]

 Score =  191 bits (487), Expect = 6e-58
 Identities = 110/352 (31%), Positives = 176/352 (50%), Gaps = 12/352 (3%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
             +++E       + L      I ++P   R  SN    +        + L      RS 
Sbjct: 10  ALSKLEHFAHKIYEQLEKGQIPIVEVPT--RTKSNIIYDE---ESDHIV-LGDRKSERSF 63

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVI 120
                A+   +   +++   ++L   K  T RE++Y         F  Q + +R I+D+ 
Sbjct: 64  LTVKGARKLAQTLLMLDFIKELLELGKTSTLREIYYISKHVEVFKFDDQSESDRLIEDIE 123

Query: 121 ALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKT 180
             L  SR  LGI    +GLV G L ++E  ++ ID S  G  GY I  D+ ++E +D  T
Sbjct: 124 VTLGLSREDLGIRPEEKGLVYGPLRIREEGEDEIDASKLGGGGYLIPPDVDVIEFVD--T 181

Query: 181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILAL 240
           DA++++VVEK A+FQRL E+  + +  +IL+T KG PD ATR  L RLN    DLP+   
Sbjct: 182 DAKFVLVVEKDAVFQRLVEEGFWEKENAILVTLKGQPDRATRRFLKRLNEEL-DLPVYVF 240

Query: 241 VDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRDLQ 299
            D +P G  I   +K+GSI +  E+ R A  + K+LG+   D+          LK RD++
Sbjct: 241 TDGDPYGWYIYSVYKYGSIKLAHESERLATPDAKFLGVTMQDIVEYNLPQTDKLKDRDIK 300

Query: 300 IARSLMSSEILQENY-KEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKKI 349
             + L+     Q+ + KEEL L++  G++AE +AL   G +++ K Y+ +KI
Sbjct: 301 RLKELLRDPRFQKEFWKEELKLLLKIGKKAEQQALASKGLEFVAKTYLPEKI 352

Length = 356

>gnl|CDD|173774 cd00223, TOPRIM_TopoIIB_SPO, TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11

 Score =  179 bits (457), Expect = 6e-56
 Identities = 71/161 (44%), Positives = 102/161 (63%), Gaps = 4/161 (2%)

Query: 183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVD 242
            +++VVEK A+FQRL E+    +   ILIT KGYPD ATR  L RL+    DLP+  LVD
Sbjct: 1   DFVLVVEKEAVFQRLIEEGFHERNNCILITGKGYPDRATRRFLRRLHEEL-DLPVYILVD 59

Query: 243 WNPAGLAILCTFKFGSIGMGMEAYRYA-CNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIA 301
            +P G++IL T+K+GSI +  E+   A  +++WLGLR  D+  +P+  LLPL  RDL+ A
Sbjct: 60  GDPYGISILLTYKYGSIKLAYESESLATPDLRWLGLRPSDIIRLPDLPLLPLSERDLKRA 119

Query: 302 RSLMSSE--ILQENYKEELSLMVHNGQRAEVEALYFHGYDY 340
           +SL+          +K EL LM+  G++AE+EAL   G ++
Sbjct: 120 KSLLRRPRFKELPEWKRELQLMLKLGKKAEIEALASCGLEF 160

This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD. For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. Length = 160

>gnl|CDD|235287 PRK04342, PRK04342, DNA topoisomerase VI subunit A; Provisional

 Score =  172 bits (439), Expect = 1e-50
 Identities = 91/307 (29%), Positives = 154/307 (50%), Gaps = 12/307 (3%)

Query: 57  TRSLTKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEY----FTSQLQV 112
            RS      AK F++   + E   ++L + K  T REL+Y      P      F  Q + 
Sbjct: 64  KRSFLNVKQAKKFMQTVLMAEFIKELLEENKSSTLRELYYMSKHWIPGLKENTFDDQDES 123

Query: 113 NRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSL 172
           +  I+D+   L   R  L I     G V G L +++   E IDCS  G  GYSI  ++  
Sbjct: 124 DAVIEDLEVALGVLREELHIRPEEDGSVVGPLRIRDGTDE-IDCSKLGEGGYSIPPNVDN 182

Query: 173 LEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAF 232
           +E +D   DA +++ VEK  +FQRL E+  + +  +IL+  KG P  ATR  + RLN   
Sbjct: 183 IEFVD--VDADFVLAVEKGGMFQRLVEEGFWKKYNAILVHLKGQPARATRRFIKRLNEEL 240

Query: 233 PDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQ-LIPEQSL 290
             LP+    D +P G  I    K+GSI +   + R A  + K++G+   D+     +   
Sbjct: 241 -GLPVYVFTDGDPWGYYIYSVVKYGSIKLAHLSERLATPDAKFIGVTPSDIVEYERDLPT 299

Query: 291 LPLKPRDLQIARSLMSSEILQ-ENYKEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKK 348
           + LK  D++ A+ L++    Q + +++E++L +  G++AE +AL   G  ++   Y+ +K
Sbjct: 300 IKLKDSDIKRAKELLNYPWFQTDFWQKEINLFLKIGKKAEQQALASKGLKFVTDEYLPEK 359

Query: 349 IVQADYI 355
           + + D++
Sbjct: 360 LEEKDWL 366

Length = 367

>gnl|CDD|190973 pfam04406, TP6A_N, Type IIB DNA topoisomerase

 Score = 64.5 bits (158), Expect = 2e-13
 Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 4/70 (5%)

Query: 64  NAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALL 123
             AK F +   V+E   ++L ++K  T+R+++Y     +   F SQ + +R I+D+  LL
Sbjct: 3   KQAKKFAQTLYVLEFIKELLEEDKSSTKRDIYYT----NKHLFGSQSESDRIIEDLEVLL 58

Query: 124 HCSRFSLGIV 133
              R  L I+
Sbjct: 59  GLPREDLNII 68

Type II DNA topoisomerases are ubiquitous enzymes that catalyze the ATP-dependent transport of one DNA duplex through a second DNA segment via a transient double-strand break. Type II DNA topoisomerases are now subdivided into two sub-families, type IIA and IIB DNA topoisomerases. TP6A_N is present in type IIB topoisomerase and is thought to be involved in DNA binding owing to its sequence similarity to E. coli catabolite activator protein (CAP). Length = 68

>gnl|CDD|173773 cd00188, TOPRIM, Topoisomerase-primase domain

 Score = 38.2 bits (89), Expect = 5e-04
 Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 5/68 (7%)

Query: 183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVD 242
           + +I+VE  +    L +   +      ++   G+    TR LL RL        ++   D
Sbjct: 1   KKLIIVEGPSDALALAQAGGYGGA---VVALGGHALNKTRELLKRLLGE--AKEVIIATD 55

Query: 243 WNPAGLAI 250
            +  G AI
Sbjct: 56  ADREGEAI 63

This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. Length = 83

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	355
PLN00060	384	meiotic recombination protein SPO11-2; Provisional	100.0
PRK04342	367	DNA topoisomerase VI subunit A; Provisional	100.0
COG1697	356	DNA topoisomerase VI, subunit A [DNA replication,	100.0
KOG2795	372	consensus Catalytic subunit of the meiotic double	100.0
cd00223	160	TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomera	100.0
PF04406	68	TP6A_N: Type IIB DNA topoisomerase; InterPro: IPR0	99.84
PF09983	181	DUF2220: Uncharacterized protein conserved in bact	99.5
PF09664	152	DUF2399: Protein of unknown function C-terminus (D	99.36
TIGR02679	385	conserved hypothetical protein TIGR02679. Members	98.39
cd00188	83	TOPRIM Topoisomerase-primase domain. This is a nuc	96.71
COG4924	386	Uncharacterized protein conserved in bacteria [Fun	89.85
TIGR00334	174	5S_RNA_mat_M5 ribonuclease M5. This family of orth	89.57
smart00493	76	TOPRIM topoisomerases, DnaG-type primases, OLD fam	86.82
cd01026	97	TOPRIM_OLD TOPRIM_OLD: topoisomerase-primase (TOPR	84.81
cd01027	81	TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The to	80.55

>PLN00060 meiotic recombination protein SPO11-2; Provisional

Probab=100.00  E-value=3.2e-105  Score=785.39  Aligned_cols=355  Identities=74%  Similarity=1.210  Sum_probs=342.2

Q ss_pred             ChhHHHHHHHHHHHHHcCCCCCCccccccccCCCCceeccccc-cccceeeecCceeEEeecCchhHHHHHHHHHHHHHH
Q 037694            1 VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLL-TDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETC   79 (355)
Q Consensus         1 ~~~~Ie~~v~~~l~~L~~~~p~~~~l~~~~R~~~n~~~~~~~~-~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~vl~~i   79 (355)
                      |+++||+++++++.+|++|.|+.+++|+|+|+++|+.|+++++ .+...++++++.++|++.+.++|++|+++++||+++
T Consensus        29 ~~~~iE~~~~~~~~~l~~~~~~~~~~~~~~r~~~n~~~~~~~~~~~~~~~~l~~~~~~r~~~~~~~a~kf~~~~~vl~~i  108 (384)
T PLN00060         29 ARARIEVAVLNFLAALNSPDPAISDLPLISRNCSNVLLRRGLLQGDVSSIFLSHLFCKRSLTKAGSAKAFVRVWKVMEMC  108 (384)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccceecccccccccccccccccccccceeeeccceeeEecCCHHHHHHHHHHHHHHHHH
Confidence            6899999999999999999998888999999999999999876 344478899999999999999999999999999999


Q ss_pred             HHHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCceecCCeeEEEeeEEecCCCceEecccC
Q 037694           80 FQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSAC  159 (355)
Q Consensus        80 ~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv~G~l~i~~~~~~~id~s~~  159 (355)
                      |++|.+|+++|+|||||++++|++++|++|++||++|+|||++++++|++|||+|++||+|+|++++.+.+++.+||+..
T Consensus       109 ~~~l~~~~~~TkRdiYY~~~~~~~~lF~~Q~~vd~~I~Di~~~l~~~R~~L~I~a~~KGlV~G~l~i~~~~~~~idcs~~  188 (384)
T PLN00060        109 YQILGEGKLVTQRELFYKLLCDSPEYFSCQRHVNQTVQDVVSLLRCSRYSLGIMASSRGALIGRLVLQEPNEEPVDCSIL  188 (384)
T ss_pred             HHHHHcCCccchHHhhcccccCChhhcCCHHHHHHHHHHHHHHHCCCHHHCCeEecCCceEEeeeEEEecCCcEEEeecc
Confidence            99999999999999999999899999999999999999999999999999999999999999999999888889999999


Q ss_pred             CCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEE
Q 037694          160 GSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA  239 (355)
Q Consensus       160 g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~  239 (355)
                      |.+|+.||++++.++.+.+.++|+|||||||||||+||++++|+++.||||||||||||++||+||++|++++|++|||+
T Consensus       189 g~~G~~Ip~~~~~i~~~~i~s~a~~VLVVEKeavF~rL~e~~~~~~~~cILITgKGyPD~aTR~fL~~L~~~~p~lPv~~  268 (384)
T PLN00060        189 GISGHAITGDLNLLSNLILSSDARYIIVVEKDAIFQRLAEDRFFNHIPCILITAKGYPDLATRFILHRLSQTFPNLPILA  268 (384)
T ss_pred             CCCceeCCCcHHHhhhcccccCccEEEEEecHHHHHHHHHhhhhhhCCEEEEecCCCCCHHHHHHHHHHHHhcCCCCEEE
Confidence            99999999999888776678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCChhhHHHHHHhhcCCcccccccccccccceeecccccccccCCCCccCCCCHHHHHHHHHhhhhhhhhHHHHHHHH
Q 037694          240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELS  319 (355)
Q Consensus       240 l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~~~~~wlGv~~~di~~l~~~~~~pLt~~D~~~l~~ll~~~~~~~~w~~el~  319 (355)
                      |||+||||++||++|||||++|+|+++.++|+++|+|++|+|+..+|.++++|||++|++++++||++|++++.|++||+
T Consensus       269 LvD~DP~Gi~I~~tYkyGS~~~a~es~~la~~i~WLGl~~sDi~~l~~~~~i~Lt~rD~~~~~~lL~~~~~~~~w~~EL~  348 (384)
T PLN00060        269 LVDWNPAGLAILCTYKFGSIGMGLEAYRYACNVKWLGLRGDDLQLIPPEAFVELKPRDLQIAKSLLSSKFLQNRYREELT  348 (384)
T ss_pred             EECCCcchHHHHHHhhcCchhhhhcccccccCCeEecCCHHHHhcCCHhhcCCCCHHHHHHHHHHhhChhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999889999999


Q ss_pred             HHHHcCCeEeeeehhhcCCchHHHHHHHHHhcCCCC
Q 037694          320 LMVHNGQRAEVEALYFHGYDYLGKYIAKKIVQADYI  355 (355)
Q Consensus       320 ~ml~~~~KaEiEal~~~g~~fl~~Yl~~Ki~~~~~i  355 (355)
                      +|++.|+|||||||+++|++|+++|||+||.++|||
T Consensus       349 ~Ml~~~~KaEiEAL~~~g~~fl~~Ylp~Ki~~~~~i  384 (384)
T PLN00060        349 LMVQTGKRAEIEALYSHGYDYLGKYVARKIVQGDYI  384 (384)
T ss_pred             HHHHhCcchhhHhHHhcChHHHHHHHHHHHhcCCcC
Confidence            999999999999999999999999999999999997

>PRK04342 DNA topoisomerase VI subunit A; Provisional

Probab=100.00  E-value=5.2e-95  Score=714.94  Aligned_cols=344  Identities=27%  Similarity=0.437  Sum_probs=324.9

Q ss_pred             ChhHHHHHHHHHHHHHcCCC-CCCccccccccCCCCceeccccccccceeeecCceeEEeecCchhHHHHHHHHHHHHHH
Q 037694            1 VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETC   79 (355)
Q Consensus         1 ~~~~Ie~~v~~~l~~L~~~~-p~~~~l~~~~R~~~n~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~vl~~i   79 (355)
                      |+++||++..++++++.+|+ |.   +++|+|+++|+.||+.    .+.+.+|++.+.|++.++++|++|+++++||+++
T Consensus        14 ~~~~i~~l~~~~~~~~~~g~~p~---~~ip~r~~~n~~~d~~----~~~~~~~~~~~~r~~~~~~~a~~f~~~~~vl~~i   86 (367)
T PRK04342         14 ALKKLRELAEKIYEDIEKGKRPV---LEIPKRTLSNIEYDEK----KGLLVLGDKKSKRSFLNVKQAKKFMQTVLMAEFI   86 (367)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCE---EecccccccceEEccc----cCeEeeCCCceEEecCCHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999 76   8889999999999973    4567799999999999999999999999999999


Q ss_pred             HHHHhcCCCccccceeccccCC----CccccCchHHHHHHHHHHHHhhccCccccCceecCCeeEEEeeEEecCCCceEe
Q 037694           80 FQILSQEKRVTQRELFYKLLCD----SPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVID  155 (355)
Q Consensus        80 ~~~l~~~~~~T~RdiYY~~~~~----~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv~G~l~i~~~~~~~id  155 (355)
                      |++|.+|+++|+|||||++++|    ++++|++|++||++|+|||+++|++|++|||+|++||+|+|++++.+ +++.+|
T Consensus        87 ~~~l~~~~~~T~RdiYY~~~~~~~~~~~~~F~~Q~~~d~~I~dl~~~l~~~R~~L~I~a~~KGlv~G~i~i~~-~~~~id  165 (367)
T PRK04342         87 KELLEENKSSTLRELYYMSKHWIPGLKENTFDDQDESDAVIEDLEVALGVLREELHIRPEEDGSVVGPLRIRD-GTDEID  165 (367)
T ss_pred             HHHHHcCCccchhhhcccCcccccccccccCCCHHHHHHHHHHHHHHHCCCHHHCCeeECCCeEEEeceEEEE-CCcEEE
Confidence            9999999999999999998776    78899999999999999999999999999999999999999999998 567999


Q ss_pred             cccCCCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCC
Q 037694          156 CSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDL  235 (355)
Q Consensus       156 ~s~~g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~l  235 (355)
                      |+.+|.+|++||++++.++.  +.++|+|||||||+|+|++|++++|+++.||||||||||||++||+||++|++++ ++
T Consensus       166 ~~~~g~~~~~ip~~~~~i~~--i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlItgkG~Pd~~TR~fl~~L~~~~-~l  242 (367)
T PRK04342        166 CSKLGEGGYSIPPNVDNIEF--VDVDADFVLAVEKGGMFQRLVEEGFWKKYNAILVHLKGQPARATRRFIKRLNEEL-GL  242 (367)
T ss_pred             EeccCCCceeCCCchhhhee--eccCCCEEEEEechHHHHHHHHhCcccccCEEEEECCCCCCHHHHHHHHHHHHhc-CC
Confidence            99999999999999887765  4799999999999999999999999999999999999999999999999999987 89


Q ss_pred             CEEEEecCChhhHHHHHHhhcCCccccccccccccc-ceeecccccccccC-CCCccCCCCHHHHHHHHHhhhhhhhhH-
Q 037694          236 PILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQLI-PEQSLLPLKPRDLQIARSLMSSEILQE-  312 (355)
Q Consensus       236 pv~~l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~~~-~~wlGv~~~di~~l-~~~~~~pLt~~D~~~l~~ll~~~~~~~-  312 (355)
                      |||+|||+||||++||++|||||++++|+++.+++| ++|+|++++|+... |..+++|||++|++++++||++|+++. 
T Consensus       243 pv~~l~D~DP~G~~I~~tyk~GS~~~a~~s~~l~~P~~kwlGl~~sDi~~~~~~~~~~~Lt~~D~~~l~~lL~~~~~~~~  322 (367)
T PRK04342        243 PVYVFTDGDPWGYYIYSVVKYGSIKLAHLSERLATPDAKFIGVTPSDIVEYERDLPTIKLKDSDIKRAKELLNYPWFQTD  322 (367)
T ss_pred             CEEEEECCCccHHHHHHHHHhCchhhhhhhhhccCCCCEEecCcHHHHHhhccccccCCCCHHHHHHHHHHhcCccccCH
Confidence            999999999999999999999999999999988776 99999999998764 778899999999999999999999854 


Q ss_pred             HHHHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCCCC
Q 037694          313 NYKEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQADYI  355 (355)
Q Consensus       313 ~w~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~~i  355 (355)
                      +|++||++|++.|+|||||||+++|++|++ +|||+||.+++||
T Consensus       323 ~w~~El~~ml~~~~KaEiEal~~~~~~~~~~~Ylp~Ki~~~~~i  366 (367)
T PRK04342        323 FWQKEINLFLKIGKKAEQQALASKGLKFVTDEYLPEKLEEKDWL  366 (367)
T ss_pred             HHHHHHHHHHHhCCceeeehhhhcChhhhHHHHHHHHHhcCCCC
Confidence            899999999999999999999999999999 7999999999997

>COG1697 DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]

Probab=100.00  E-value=9.4e-93  Score=677.06  Aligned_cols=343  Identities=31%  Similarity=0.478  Sum_probs=321.5

Q ss_pred             ChhHHHHHHHHHHHHHcCCC-CCCccccccccCCCCceeccccccccceeeecCceeEEeecCchhHHHHHHHHHHHHHH
Q 037694            1 VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETC   79 (355)
Q Consensus         1 ~~~~Ie~~v~~~l~~L~~~~-p~~~~l~~~~R~~~n~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~vl~~i   79 (355)
                      |+++|+.....++++|.+|+ |.   +.+|+|+.||+.||+    +...+.+|++.+.|+|.++++|++|+++++++.++
T Consensus        10 a~~~l~~~~~~~~~~l~~~~~p~---~~vp~r~~sn~~~d~----~~~~~~lg~r~~~r~~~~v~~a~k~~q~l~~~~~i   82 (356)
T COG1697          10 ALSKLEHFAHKIYEQLEKGQIPI---VEVPTRTKSNIIYDE----ESDHIVLGDRKSERSFLTVKGARKLAQTLLMLDFI   82 (356)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCc---eecccccccccccCc----cccceeccccccchhhhhHHHHHHHHHHHHHHHHH
Confidence            57899999999999999999 55   677899999999997    44577899999999999999999999999999999


Q ss_pred             HHHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCceecCCeeEEEeeEEecCCCceEecccC
Q 037694           80 FQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSAC  159 (355)
Q Consensus        80 ~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv~G~l~i~~~~~~~id~s~~  159 (355)
                      ++++..|+++|+|||||.+++|++-.|++|++||++|+||+..+|++|++|||.|++||.|+||+.|++.|+.+|||++.
T Consensus        83 ~e~l~~~~~~TlReiYY~~~~~~~~k~~~Q~esd~lieDie~~~gl~Re~l~i~p~ekG~V~G~l~I~~~g~~~i~~sk~  162 (356)
T COG1697          83 KELLELGKTSTLREIYYISKHVEVFKFDDQSESDRLIEDIEVTLGLSREDLGIRPEEKGLVYGPLRIREEGEDEIDASKL  162 (356)
T ss_pred             HHHHhcCCCccHHHHhhhccCcccccccchhHHHHHHHHHHHHhccCHHHcCCCcccCceEEcceEEEecCCcEEEeeec
Confidence            99999999999999999999877666669999999999999999999999999999999999999999877889999999


Q ss_pred             CCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEE
Q 037694          160 GSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA  239 (355)
Q Consensus       160 g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~  239 (355)
                      |.+|++||++++.|+.  ++++|+|||||||+|||+||++++||++++|||||||||||++||+||+||++++ ++|||+
T Consensus       163 G~~~y~Ip~~~d~I~f--~~~da~~VlvVEk~avf~rLv~e~~~~k~nailVt~KGqP~raTRrflkrL~eel-~lpv~v  239 (356)
T COG1697         163 GGGGYLIPPDVDVIEF--VDTDAKFVLVVEKDAVFQRLVEEGFWEKENAILVTLKGQPDRATRRFLKRLNEEL-DLPVYV  239 (356)
T ss_pred             CCCCCcCCCChhheee--ccccceEEEEEechHHHHHHHHhhhhhhcCeEEEecCCCccHHHHHHHHHHHHHh-CCCEEE
Confidence            9999999999988765  5799999999999999999999999999999999999999999999999999999 999999


Q ss_pred             EecCChhhHHHHHHhhcCCccccccccccccc-ceeecccccccccCCCCccCCCCHHHHHHHHHhhhhhhhhH-HHHHH
Q 037694          240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQE-NYKEE  317 (355)
Q Consensus       240 l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~~~-~~wlGv~~~di~~l~~~~~~pLt~~D~~~l~~ll~~~~~~~-~w~~e  317 (355)
                      |+|+||||++||++|+|||++.||+++.+++| ++++|++|+||..-+.....||+++|++++++++++|+++. .|++|
T Consensus       240 ftDgDPyG~~Iy~~~k~GS~k~ah~se~latp~akflGv~~~DI~~ynl~~t~~l~~~Dik~lk~ll~~~~f~~~~W~~e  319 (356)
T COG1697         240 FTDGDPYGWYIYSVYKYGSIKLAHESERLATPDAKFLGVTMQDIVEYNLPQTDKLKDRDIKRLKELLRDPRFQKEFWKEE  319 (356)
T ss_pred             EecCCCCEEEEEEEEEecchhhhhcchhhcCCcceeeeccHHHHhhccccccccchhhhHHHHHHHhccccccchhHHHH
Confidence            99999999999999999999999999988776 99999999999864332568899999999999999999954 89999


Q ss_pred             HHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCC
Q 037694          318 LSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQAD  353 (355)
Q Consensus       318 l~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~  353 (355)
                      |+.||+.++|||||||+++|++|++ .|||+||.+++
T Consensus       320 l~~~l~i~kK~E~qAla~kgl~~v~~~ylpeki~e~~  356 (356)
T COG1697         320 LKLLLKIGKKAEQQALASKGLEFVAKTYLPEKIEELK  356 (356)
T ss_pred             HHHHHHHhHHHHHHHHHhcChHHhHHhhhHHHHhccC
Confidence            9999999999999999999999999 69999998764

>KOG2795 consensus Catalytic subunit of the meiotic double strand break transesterase [Replication, recombination and repair]

Probab=100.00  E-value=4.6e-91  Score=668.68  Aligned_cols=342  Identities=43%  Similarity=0.689  Sum_probs=313.4

Q ss_pred             ChhHHHHHHHHHHHHHcCCCCCCccccccccCCCCceeccccccccceeeecCceeEEeecCchhHHHHHHHHHHHHHHH
Q 037694            1 VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETCF   80 (355)
Q Consensus         1 ~~~~Ie~~v~~~l~~L~~~~p~~~~l~~~~R~~~n~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~vl~~i~   80 (355)
                      |+++||..|++++.+|+++++.  ++..++|..+|..++.++...   ...++ .+.|...+.+.+++|++++++|+.||
T Consensus        24 ~la~I~~~v~~~~~~l~r~~~~--sls~~~r~~~n~~~~~~l~~~---~~~~~-~~~~~~~~~~~~~~~~~llrvL~~V~   97 (372)
T KOG2795|consen   24 VLARIEDFVLSVLVQLARPEGF--SLSVINRKRSNSLSSPDLDTL---VSKSH-NTLRFTFSSKKAKKFAILLRVLEIVH   97 (372)
T ss_pred             HHHHHHHHHHHHHHHhhcccCC--cccchhhhhcCCccCcchhhh---hcccc-cccceeeccccchHHHHHHHHHHHHH
Confidence            5899999999999999999833  477889998888877654422   11222 33444444555899999999999999


Q ss_pred             HHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCceecCCeeEEEeeEEecCCCceEecccCC
Q 037694           81 QILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACG  160 (355)
Q Consensus        81 ~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv~G~l~i~~~~~~~id~s~~g  160 (355)
                      +++..|+++|+|||||+    |+++|++|..||++++|||++|+|+|.+|||.|++||+|+|++.|.+.+|..+||+.+|
T Consensus        98 ell~~~~~~TkRdiyY~----dv~lF~~Qs~Vd~~l~dI~~~l~~SR~sLnI~a~~KGLV~G~l~~~~~ng~~id~~~~~  173 (372)
T KOG2795|consen   98 ELLELGKRVTKRDIYYM----DVDLFRRQSVVDRLLDDICCLLKCSRYSLNILAASKGLVAGRLRFLEENGDVIDCTESG  173 (372)
T ss_pred             HHHHcCCceeeeeeeec----CHHHHhhHHHHHHHHHHHHHHhcCChhcCCeeeecCceEEeeEEEEEcCCcEEEeccCC
Confidence            99999999999999998    89999999999999999999999999999999999999999999999899999999999


Q ss_pred             CCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCC-CEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEE
Q 037694          161 SSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQI-PSILITAKGYPDIATRFLLHRLNRAFPDLPILA  239 (355)
Q Consensus       161 ~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~-~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~  239 (355)
                      .+|.+||++++.+++  +.++|+||||||||||||||+++.|+++. |||+||||||||.+||.||++|.+++ ++||++
T Consensus       174 ~~~~~lp~d~~~i~~--i~tdA~~IlIVEKeavFqrL~~d~~~~~~~~~ilITgKGyPD~~TR~fLkkL~~~~-~lpv~~  250 (372)
T KOG2795|consen  174 GGPKALPPDIDDISN--ITTDAKFILIVEKEAVFQRLAEDNFFNTFNRCILITGKGYPDIATRLFLKKLEEKL-KLPVYG  250 (372)
T ss_pred             CCCccCCCCHHHHhh--hhccceEEEEEehHHHHHHHHHHHHHhhcCCeEEEecCCCCcHHHHHHHHHHHHHh-CCCEEE
Confidence            999999999999887  67999999999999999999999999998 79999999999999999999999999 999999


Q ss_pred             EecCChhhHHHHHHhhcCCccccccccccc-ccceeeccccccccc--CCCCccCCCCHHHHHHHHHhhhhhhhhH--HH
Q 037694          240 LVDWNPAGLAILCTFKFGSIGMGMEAYRYA-CNVKWLGLRGDDVQL--IPEQSLLPLKPRDLQIARSLMSSEILQE--NY  314 (355)
Q Consensus       240 l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~-~~~~wlGv~~~di~~--l~~~~~~pLt~~D~~~l~~ll~~~~~~~--~w  314 (355)
                      |||+||||++||++|||||++|+||++.++ |+++|+|++|+|+..  .|+++++||+++|.+++++||.+++++.  .|
T Consensus       251 LvDaDP~Gi~I~~~Yk~GS~~ms~e~~~~~~p~I~wiGl~psD~~~~n~~k~~~lpL~~~D~k~i~~lL~~~~l~~~p~~  330 (372)
T KOG2795|consen  251 LVDADPYGIEILLTYKYGSKSMSYESHGLTVPTIRWIGLLPSDLEVKNIPKDQLLPLNKRDIKKIKDLLARLILQKEPVV  330 (372)
T ss_pred             EeecCCcceEEEEEeeeCccccccccccccCCcceEEeechhhhhhcCCchheeecccHHHHHHHHHHHhhhhcccChhH
Confidence            999999999999999999999999999887 669999999999986  5667999999999999999999999976  49


Q ss_pred             HHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCCCC
Q 037694          315 KEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQADYI  355 (355)
Q Consensus       315 ~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~~i  355 (355)
                      ++|+++|++.++||||||+..+|.+|++ .|+|.|+++++|+
T Consensus       331 r~el~~ml~~~~KaEieal~~~~~~~~~~~yia~k~~~~~~~  372 (372)
T KOG2795|consen  331 REELERMLKNKVKAEIEALSFFGSDYLSRVYIARKLERISSL  372 (372)
T ss_pred             HHHHHHHHhcchhhhhhhhhhcchHHHhhhhhhHHHhhcccC
Confidence            9999999999999999999999999999 6999999999986

>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11

Probab=100.00  E-value=8.7e-45  Score=320.70  Aligned_cols=157  Identities=45%  Similarity=0.765  Sum_probs=146.5

Q ss_pred             cEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhhcCCcccc
Q 037694          183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMG  262 (355)
Q Consensus       183 ~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk~GS~~~~  262 (355)
                      ++|+||||+|+|++|++++++...+||+||||||||++||+||++|++++ ++|+|+|+|+||||++|+++|++||.+++
T Consensus         1 ~~ilvVEk~avf~~L~~~~~~~~~~~ilit~kG~P~~~tr~~l~~L~~~~-~~~~~~l~D~DP~Gi~I~~~y~~gs~~~~   79 (160)
T cd00223           1 DFVLVVEKEAVFQRLIEEGFHERNNCILITGKGYPDRATRRFLRRLHEEL-DLPVYILVDGDPYGISILLTYKYGSIKLA   79 (160)
T ss_pred             CEEEEEecHHHHHHHHHcCccccCCEEEEEcCCcCCHHHHHHHHHHHHhh-CCCEEEEECCCcchhhhhHHHHhCccccc
Confidence            58999999999999999999988899999999999999999999999988 89999999999999999999999999999


Q ss_pred             cccccccc-cceeecccccccccCCCCccCCCCHHHHHHHHHhhhhhhh--hHHHHHHHHHHHHcCCeEeeeehhhcCCc
Q 037694          263 MEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEIL--QENYKEELSLMVHNGQRAEVEALYFHGYD  339 (355)
Q Consensus       263 ~~~~~~~~-~~~wlGv~~~di~~l~~~~~~pLt~~D~~~l~~ll~~~~~--~~~w~~el~~ml~~~~KaEiEal~~~g~~  339 (355)
                      ++...+++ .++|+|++|+|+..++....+|||++|++++++|++++..  ...|++|+++|++.|+|+||||+...|.+
T Consensus        80 ~~~~~~~~~~l~~~G~~~~d~~~~~~~~~~~Ls~~d~~~l~~ll~~~~~~~~~~~~~el~~ml~~~~K~E~Eal~~~~~~  159 (160)
T cd00223          80 YESESLATPDLRWLGLRPSDIIRLPDLPLLPLSERDLKRAKSLLRRPRFKELPEWKRELQLMLKLGKKAEIEALASCGLE  159 (160)
T ss_pred             cccccccCCCcEEccCCHHHHhhccccccCCCCHHHHHHHHHHHhccccccCHHHHHHHHHHHHhCCeeeehhHhhcCCC
Confidence            99877654 5999999999998777788899999999999999999875  34899999999999999999999998876


Q ss_pred             h
Q 037694          340 Y  340 (355)
Q Consensus       340 f  340 (355)
                      |
T Consensus       160 ~  160 (160)
T cd00223         160 F  160 (160)
T ss_pred             C
Confidence            4

This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart

>PF04406 TP6A_N: Type IIB DNA topoisomerase; InterPro: IPR013049 This entry represents the N-terminal domain found in Spo11, a meiotic recombination protein found in eukaryotes, and in subunit A of topoisomerase VI, a type IIB topoisomerase found predominantly in archaea [, ]

Probab=99.84  E-value=2.9e-21  Score=147.31  Aligned_cols=68  Identities=32%  Similarity=0.594  Sum_probs=61.2

Q ss_pred             CchhHHHHHHHHHHHHHHHHHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCce
Q 037694           62 KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIV  133 (355)
Q Consensus        62 ~~~~~~~f~~~~~vl~~i~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~  133 (355)
                      |++++++|+++++||+.+|++|.+|+++|+|||||+    ++++|++|++||++|+|||.+|+++|++|||+
T Consensus         1 n~~~~~k~a~~l~vl~~i~~~l~~~~~~T~RdiYY~----~~~lF~~Q~~vd~~i~di~~~l~~~R~~L~Iv   68 (68)
T PF04406_consen    1 NVKSARKFAQLLRVLAIIHELLQNNKTSTKRDIYYR----NVSLFKSQREVDRAIDDICCLLGVSREDLNIV   68 (68)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHHHHTT--EEHHHHHHH----CSCS-SSHHHHHHHHHHHHHHHTS-GGGGTEE
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHcCCccchHHHHHh----chhhccCHHHHHHHHHHHHHHHCCCHHHcCCC
Confidence            468999999999999999999999999999999999    78999999999999999999999999999985

These two types of proteins share structural homology. Spo11 is a meiosis-specific protein that is responsible for the initiation of recombination through the formation of DNA double-strand breaks by a type II DNA topoisomerase-like activity. Spo11 acts in conjunction with several other proteins, including Rec102 in yeast, to bring about meiotic recombination []. DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks. They can be divided into two classes: type I enzymes (5.99.1.2 from EC, topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC, topoisomerases II, IV and VI) break double-strand DNA []. Topoisomerase VI is a type IIB enzymes that assembles as a heterotetramer, consisting of two A subunits required for DNA cleavage and two B subunits required for ATP hydrolysis. The B subunit is structurally similar to the ATPase domain of type IIA topoisomerases, but the A subunit is distinct, and instead shares homology with the Spo11 protein. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003824 catalytic activity, 0005524 ATP binding, 0006259 DNA metabolic process, 0005694 chromosome; PDB: 1D3Y_B 2ZBK_A 2Q2E_A.

>PF09983 DUF2220: Uncharacterized protein conserved in bacteria C-term(DUF2220); InterPro: IPR024534 This is a domain of unknown function that is found predominantly in hypothetical bacterial proteins

Probab=99.50  E-value=8.6e-14  Score=125.53  Aligned_cols=135  Identities=21%  Similarity=0.259  Sum_probs=93.9

Q ss_pred             cccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhhcC
Q 037694          178 LKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFG  257 (355)
Q Consensus       178 i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk~G  257 (355)
                      +..+++.|||||+.++|.++.+..     +.++|+|.||+...+++|++.+.    ..|+|+|+|.||+|+.|+...+.=
T Consensus        39 ~~~~~~~vliVEN~~tf~~~~~~~-----~~~~Iyg~G~~~~~~~~~~~~~~----~~~~~ywGDiD~~G~~I~~~lr~~  109 (181)
T PF09983_consen   39 LSLPPRRVLIVENLTTFYSLPELP-----NGLVIYGGGFAISSSRRFLKWLQ----PKPVYYWGDIDPGGLRILERLRRK  109 (181)
T ss_pred             ccCCCCEEEEEeCHHHHHHHHhcC-----CeEEEECCCcCcHHHHHHHhhcC----CCceEEeccCCHhHHHHHHHHHHh
Confidence            467899999999999999998432     68999999999999999977443    349999999999999999988741


Q ss_pred             CcccccccccccccceeecccccccccCCCCccCCCCHHHHHHHHHhhhhhhhhHHHHHHHHHHHHcCCeEeeeehh
Q 037694          258 SIGMGMEAYRYACNVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALY  334 (355)
Q Consensus       258 S~~~~~~~~~~~~~~~wlGv~~~di~~l~~~~~~pLt~~D~~~l~~ll~~~~~~~~w~~el~~ml~~~~KaEiEal~  334 (355)
                           +      ++++=.-+.+..+.........+.+....+++.. |+.+.. ..|+.-++.|+..+++.|||+|.
T Consensus       110 -----~------p~~~p~~Md~~~l~~~~~~~~~~~~~~~~~~l~~-L~~~e~-~~~~~l~~~~l~~~~riEQE~I~  173 (181)
T PF09983_consen  110 -----F------PELKPLLMDEETLERYQDRYGKEPSEPYRRKLPR-LTDEEY-ALFRELIEEMLEEGKRIEQERIP  173 (181)
T ss_pred             -----C------CCccccccCHHHHHHHHHhcCCCCCccccccchh-cCHHHH-HHHHHHHHHHHhcCCeeeecccc
Confidence                 0      1111111111222211111112234555555655 554332 36888899999999999999985

>PF09664 DUF2399: Protein of unknown function C-terminus (DUF2399); InterPro: IPR024465 This domain is found in archaeal, bacterial and eukaryotic proteins

Probab=99.36  E-value=1.2e-12  Score=114.83  Aligned_cols=129  Identities=26%  Similarity=0.352  Sum_probs=93.0

Q ss_pred             ccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh--c
Q 037694          179 KTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK--F  256 (355)
Q Consensus       179 ~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk--~  256 (355)
                      ......|.||||-+||.++++.  ....++.||++.|+|+.+++.||.+|...  +.++++.+|+||.|+.|+..++  |
T Consensus        15 ~~~~~~V~VvENp~Vf~~~~~~--~~~~~~pLVCt~G~p~~A~~~LL~~L~~~--g~~l~y~GDfDp~Gl~IA~~l~~r~   90 (152)
T PF09664_consen   15 WPPSGRVYVVENPAVFSALADE--LGASCPPLVCTSGQPSAAARRLLDRLAAA--GARLYYSGDFDPEGLRIANRLIQRY   90 (152)
T ss_pred             cCCCCEEEEEecHHHHHHHHHh--cCCCCCeEEEcCCcHHHHHHHHHHHHHhC--CCEEEEecCCCHHHHHHHHHHHHHh
Confidence            3445569999999999999988  22245789999999999999999999764  7999999999999999999886  3


Q ss_pred             CCcccccccccccccceeeccccccccc-CCCCccCCCCHHHHHHHHHhhhhhhhhHHHHHHHHHHHHcCCeEeeeehhh
Q 037694          257 GSIGMGMEAYRYACNVKWLGLRGDDVQL-IPEQSLLPLKPRDLQIARSLMSSEILQENYKEELSLMVHNGQRAEVEALYF  335 (355)
Q Consensus       257 GS~~~~~~~~~~~~~~~wlGv~~~di~~-l~~~~~~pLt~~D~~~l~~ll~~~~~~~~w~~el~~ml~~~~KaEiEal~~  335 (355)
                      |..-              --+.+.|... ++.   .+++.+..+ +.++  .|+.    .+....|.+.|++++||++..
T Consensus        91 ~~~~--------------Wrm~~~dY~~~~~~---~~~~~~~l~-l~~v--~p~~----~~L~~~m~~~~~a~~QE~l~~  146 (152)
T PF09664_consen   91 GARP--------------WRMDAEDYLAALSA---EPLSGRRLK-LPNV--APWL----PELAEAMRERGRAVYQEALLD  146 (152)
T ss_pred             CCcc--------------ccCCHHHHHHhccc---cCCCCCcCC-cccC--Chhc----HHHHHHHHHhCceeeHHHHHH
Confidence            3211              1222233322 221   345555555 4444  4443    345578999999999999864

Its function is unknown.

>TIGR02679 conserved hypothetical protein TIGR02679

Probab=98.39  E-value=7.3e-07  Score=89.28  Aligned_cols=67  Identities=24%  Similarity=0.220  Sum_probs=57.8

Q ss_pred             EEEEEehhhHHHHHHhccccCCCCE-EEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          184 YIIVVEKHAIFQRLTEDFVFNQIPS-ILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       184 ~VLvVEK~avF~rL~~~~~~~~~~~-IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      .|.||||-++|+.+++..-.   .| .+|++.|||..+++.||++|....+.+ .|+ +|.||.|+.|+...+
T Consensus       252 ~V~vvENp~vf~~~~~~~~~---~~~~lIct~G~p~~a~~~LL~~L~~~g~~l-~Yh-GDfD~~Gi~Ia~~L~  319 (385)
T TIGR02679       252 RVYVVENPNVLAIALDRLGP---RCAPLVCTDGQPNAAQIKLLDLLAAAGARL-YYH-GDFDWPGLRIANGLI  319 (385)
T ss_pred             eEEEEecHHHHHHHHHhcCC---CCceEEECCCcchHHHHHHHHHHHhcCCeE-EEe-cCCChhHHHHHHHHH
Confidence            59999999999999985311   23 799999999999999999999986554 566 999999999999887

Members of this protein belong to a conserved gene four-gene neighborhood found sporadically in a phylogenetically broad range of bacteria: Nocardia farcinica, Symbiobacterium thermophilum, and Streptomyces avermitilis (Actinobacteria), Geobacillus kaustophilus (Firmicutes), Azoarcus sp. EbN1 and Ralstonia solanacearum (Betaproteobacteria).

>cd00188 TOPRIM Topoisomerase-primase domain

Probab=96.71  E-value=0.0091  Score=44.50  Aligned_cols=63  Identities=24%  Similarity=0.211  Sum_probs=51.9

Q ss_pred             cEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHH
Q 037694          183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAI  250 (355)
Q Consensus       183 ~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I  250 (355)
                      +.|++||..+....+.+.+..   +..++...|.+...+...+.++...  ..||+.++|.|+.|..+
T Consensus         1 ~~viivEg~~d~~~l~~~~~~---~~~~~~~~G~~~~~~~~~~~~~~~~--~~~v~i~~D~D~~g~~~   63 (83)
T cd00188           1 KKLIIVEGPSDALALAQAGGY---GGAVVALGGHALNKTRELLKRLLGE--AKEVIIATDADREGEAI   63 (83)
T ss_pred             CEEEEEecHHHHHHHHHHcCC---CEEEEEEccEEcHHHHHHHHHHhcC--CCEEEEEcCCChhHHHH
Confidence            358899999999999887644   4778889999888788888888653  48999999999999843

This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.

>COG4924 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.85  E-value=0.73  Score=44.81  Aligned_cols=68  Identities=24%  Similarity=0.293  Sum_probs=48.0

Q ss_pred             cccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          178 LKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       178 i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      +.-....|++||++-.|..|-+     -...|+|-|.||--.   .+++-=  .+.+-.+..++|.|-||+-|+.-.+
T Consensus       237 l~lP~srilivENe~sfl~lP~-----~pg~i~i~GaGy~~~---~lvr~~--~l~~~~l~YWGDmDt~Gf~iL~r~R  304 (386)
T COG4924         237 LQLPQSRILIVENEDSFLALPT-----WPGVIIIWGAGYRAV---DLVRGP--YLSNGRLLYWGDMDTDGFKILDRVR  304 (386)
T ss_pred             ccCCceeEEEEechhhhhhcCC-----CCCeEEEecCCccHH---Hhhccc--ccccceeeeeccccchHHHHHHHhh
Confidence            3445568999999999998732     124799999999521   222211  1235678999999999999997665

>TIGR00334 5S_RNA_mat_M5 ribonuclease M5

Probab=89.57  E-value=1.8  Score=38.98  Aligned_cols=65  Identities=22%  Similarity=0.218  Sum_probs=50.7

Q ss_pred             cEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCC-ChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYP-DIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       183 ~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyP-d~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      +-|+|||=-.==.+|-+-     .+|-.|++.|+. +..|-..++.+++.   -.|++|+|.|.-|-.|-....
T Consensus         3 kevIVVEGK~D~~~lk~~-----~d~~~I~T~Gs~i~~~~i~~i~~~~~~---rgVIIfTDpD~~GekIRk~i~   68 (174)
T TIGR00334         3 KEIIVVEGKDDQARIKQA-----FDVDVIETNGSALKDETINLIKKAQKK---QGVIILTDPDFPGEKIRKKIE   68 (174)
T ss_pred             CeEEEEecchHHHHHHHh-----cCceEEEECCCccCHHHHHHHHHHhhc---CCEEEEeCCCCchHHHHHHHH
Confidence            568999855444555322     358888999998 88899999988874   479999999999999987765

This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases.

>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins

Probab=86.82  E-value=4.8  Score=30.07  Aligned_cols=65  Identities=20%  Similarity=0.180  Sum_probs=43.0

Q ss_pred             EEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHH
Q 037694          184 YIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCT  253 (355)
Q Consensus       184 ~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~  253 (355)
                      .+++||....-..+.+.++.   +...+...|-  ..+...+..|.+..+.-.|+.++|.|.-|-.+...
T Consensus         2 ~l~ivEg~~da~~~~~~~~~---~~~~~~~~G~--~~~~~~~~~l~~~~~~~~Iii~~D~D~~G~~~~~~   66 (76)
T smart00493        2 VLIIVEGPADAIALEKAGGF---GGNVVALGGH--LLKKEIIKLLKRLAKKKEVILATDPDREGEAIAWK   66 (76)
T ss_pred             EEEEEcCHHHHHHHHHhcCC---CEEEEEEeee--ecHHHHHHHHHHHhcCCEEEEEcCCChhHHHHHHH
Confidence            47899998888888776642   3333333342  23445666666654334599999999999887643

>cd01026 TOPRIM_OLD TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family

Probab=84.81  E-value=3.7  Score=32.79  Aligned_cols=63  Identities=19%  Similarity=0.337  Sum_probs=39.7

Q ss_pred             ccEEEEEehhh---HHHHHHhcc--ccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHH
Q 037694          182 ARYIIVVEKHA---IFQRLTEDF--VFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLA  249 (355)
Q Consensus       182 a~~VLvVEK~a---vF~rL~~~~--~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~  249 (355)
                      |+.||+||-.+   .++.+.+.-  .......-+|-..|-   +-..|.+.|.. + ++|+++++|.|..+-.
T Consensus         3 a~~vIlVEG~tE~~~l~~~~~~~~~~~~~~~i~ii~~gG~---~~~~~~~ll~~-~-~i~~~vi~D~D~~~~~   70 (97)
T cd01026           3 ADKVILVEGDSEEILLPALAKKLGLDLDEAGISIIPVGGK---NFKPFIKLLNA-L-GIPVAVLTDLDAKRNE   70 (97)
T ss_pred             CCeEEEEecHHHHHHHHHHHHHhCCCHHHCCEEEEEeCCc---chHHHHHHHHH-c-CCCEEEEEeCCCCCCc
Confidence            57899999754   355555431  112224455555553   44555666655 4 7999999999998765

The bacteriophage P2 OLD protein, which has DNase as well as RNase activity, consists of an N-terminal ABC-type ATPase domain and a C-terminal Toprim domain; the nuclease activity of OLD is stimulated by ATP, though the ATPase activity is not DNA-dependent. Functional details on OLD are scant and further experimentation is required to define the relationship between the ATPase and Toprim nuclease domains. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general acid in strand cleavage by nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.

>cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea

Probab=80.55  E-value=12  Score=29.16  Aligned_cols=65  Identities=17%  Similarity=0.050  Sum_probs=39.7

Q ss_pred             cEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       183 ~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      +.++|||=..=-.+|-+.++.  .+.|...|...++ ....++++.     .-.|+.|+|+|..|-.|.....
T Consensus         2 ~~vIiVEG~~D~~~l~~~g~~--~~~i~t~Gt~~~~-~~~~~l~~~-----~~~VIiltD~D~aG~~i~~~~~   66 (81)
T cd01027           2 GEVIIVEGKNDTESLKKLGIE--AEIIETNGSIINK-ETIELIKKA-----YRGVIILTDPDRKGEKIRKKLS   66 (81)
T ss_pred             CeEEEEEchHHHHHHHHhCCC--ccEEEECCCcCCH-HHHHHHHHh-----CCEEEEEECCCHHHHHHHHHHH
Confidence            458889876655667666542  1233333333332 344444444     2358999999999999975553

RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	355
2zbk_A	389	Crystal Structure Of An Intact Type Ii Dna Topoisom		4e-28
1d3y_A	301	Structure Of The Dna Topoisomerase Vi A Subunit Len		1e-23
2q2e_A	369	Crystal Structure Of The Topoisomerase Vi Holoenzym		2e-13

>pdb|2ZBK|A Chain A, Crystal Structure Of An Intact Type Ii Dna Topoisomerase: Insights Into Dna Transfer Mechanisms Length = 389

Iteration: 1
 Score =  122 bits (305), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 101/373 (27%), Positives = 176/373 (47%), Gaps = 37/373 (9%)
Query: 10  INFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAF 69
           +N ++ L   +P + ++P+  R  SN+   +     +           R+    N AK F
Sbjct: 26  LNLVEQLKKGEPLVMEIPM--RTLSNAIYDEKRKLLLL----GEKKLRRNFLDLNEAKRF 79
Query: 70  VRVWKVMETCFQILSQEKRVTQRELFYK----LLCDSPE---------YFTSQLQVNRTI 116
           ++   +    +  L  ++  T R+L+Y+    LL  S E          +  Q + +  I
Sbjct: 80  MQTVLMASIIYDALVSDEYPTIRDLYYRGKHSLLLKSIEGNKIVSEENTWDEQKESDSVI 139
Query: 117 QDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKL 176
            D+       R  + I++  +G V G L ++  N +VID S  G   Y+I     L++ +
Sbjct: 140 VDIEVFTSLLREEMLILSKEKGKVVGNLRIRSGN-DVIDLSKTGHGAYAIEPTPDLIDFI 198
Query: 177 DLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLP 236
           D+  DA +++VVEK A+FQ+L     + Q  SILIT+ G PD ATR  + RLN     LP
Sbjct: 199 DV--DAEFVLVVEKDAVFQQLHRAGFWKQYKSILITSAGQPDRATRRFVRRLNEELK-LP 255
Query: 237 ILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDV-----------QL 284
           +  L D +P G  I   F+ GSI +  E+ R A  + K+LG+   D+           + 
Sbjct: 256 VYILTDADPYGWYIFSVFRIGSISLSYESERLATPDAKFLGVSMGDIFGNSRKKPYLSEA 315
Query: 285 IPEQSLLPLKPRDLQIARSLMSSEILQ-ENYKEELSLMVHNGQRAEVEALYFHGYDYLG- 342
             +  ++  K  D++ A  + + E  + + ++EE++  +    + E+EA+   G  +L  
Sbjct: 316 ERKNYIIKAKDADIKRAEEIKNYEWFKTKAWQEEINTFLQRKAKLEIEAMASKGLKFLAF 375
Query: 343 KYIAKKIVQADYI 355
           +YI +KI   DYI
Sbjct: 376 QYIPEKITNKDYI 388

>pdb|1D3Y|A Chain A, Structure Of The Dna Topoisomerase Vi A Subunit Length = 301

Iteration: 1
 Score =  107 bits (266), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 90/296 (30%), Positives = 147/296 (49%), Gaps = 15/296 (5%)
Query: 64  NAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALL 123
           N AK F +  K++E   Q+L  +   T RE +Y         F  Q   N  I+D+ A L
Sbjct: 3   NQAKIFAQTTKMLEFAKQLLETDDFSTLREAYYVSKNWGEARFDDQQASNNVIEDLEAAL 62
Query: 124 HCSRFSLGIVASSRGL-VAGRLMLQEPNQE---VIDCSACGSSGYSISGDLSLLEKLDLK 179
              R  LG +    G  V G L + E   E   V+DC+  G+  Y+I  D++   KL+L+
Sbjct: 63  GVLREHLGFIPEEDGSSVVGPLKIIEETPEGELVVDCTKLGTGAYNIPNDVT---KLNLE 119
Query: 180 TDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA 239
           TDA +I+ +E   +F RL  +  +++   IL++ KG P  ATR  + RL+    DLP+L 
Sbjct: 120 TDADFILAIETSGMFARLNAERFWDKHNCILVSLKGVPARATRRFIKRLHEEH-DLPVLV 178
Query: 240 LVDWNPAG-LAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRD 297
             D +P G L I  T K GS      A + +    + +G+   D+ +  +    PLK +D
Sbjct: 179 FTDGDPYGYLNIYRTLKVGSGKAIHLADKLSIPAARLIGVTPQDI-IDYDLPTHPLKEQD 237
Query: 298 LQ-IARSLMSSEILQE--NYKEELSLMVHNGQRAEVEALYFHGYDY-LGKYIAKKI 349
           ++ I   L + + ++    +++ L  M+  G RAE ++L  +G  Y +  Y+ +KI
Sbjct: 238 IKRIKDGLKNDDFVRSFPEWQKALKQMLDMGVRAEQQSLAKYGLKYVVNTYLPEKI 293

>pdb|2Q2E|A Chain A, Crystal Structure Of The Topoisomerase Vi Holoenzyme From Methanosarcina Mazei Length = 369

Iteration: 1
 Score = 73.2 bits (178), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 73/293 (24%), Positives = 134/293 (45%), Gaps = 22/293 (7%)
Query: 65  AAKAFVRVWKVMETCF-------QILSQEKRVTQRELFYKLLCDSPEY--FTSQLQVNRT 115
           +AK     +++++T +       + L++ +  T REL+Y  + +  +Y  F  Q + +R 
Sbjct: 68  SAKTVKGAFQLLKTTYATDFLINEHLARNRGSTLRELYY--ISEGWDYAKFKEQGESDRL 125
Query: 116 IQDVIALLHCSRFSLGIVASSRGLVA-GRLMLQEP---NQEVIDCSA-CGSSGYSISGDL 170
           I+D+  L    R    +     G    G + + E     +  I C    G  GY I  ++
Sbjct: 126 IEDLEILTSLQREYFHMRPEEDGATMFGPIEITEQTKRGERNIHCQKDVGEGGYQIPFNV 185
Query: 171 SLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNR 230
             +E    K DA  II +E   ++ RL E+       +IL+  KG P  +TR ++ R+N 
Sbjct: 186 ENIEFQ--KHDASMIIAIETGGMYARLMENGFDEAYNAILVHLKGQPARSTRRIIKRMNE 243
Query: 231 AFPDLPILALVDWNPAGLAILCTFKFGSIGMG-MEAYRYACNVKWLGLRGDDVQLIPEQS 289
               +P+    D +P    I  +  +G+I    +  +      K+LGL+  D+ +  E S
Sbjct: 244 EL-GIPVAVFTDGDPWSYRIYASVAYGAIKSAHLSEFMATPAAKFLGLQPSDI-VEYELS 301
Query: 290 LLPLKPRDLQIARSLMSSEILQENY-KEELSLMVHNGQRAEVEALYFHGYDYL 341
              L  +D+   RS +S    + +Y KE++ L +  G++AE +A    G D++
Sbjct: 302 TDKLTEQDVSALRSELSDPRFESDYWKEQIQLQLDIGKKAEQQAFAGKGLDFV 354
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	355
2zbk_A	389	Type II DNA topoisomerase VI subunit A; DNA bindin	4e-76
2q2e_A	369	Type II DNA topoisomerase VI subunit A; DNA-bindin	7e-70
1d3y_A	301	DNA topoisomerase VI A subunit; DNA binding protei	9e-69
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>2zbk_A Type II DNA topoisomerase VI subunit A; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Length = 389

 Score =  238 bits (608), Expect = 4e-76
 Identities = 98/382 (25%), Positives = 172/382 (45%), Gaps = 37/382 (9%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
               +    +N ++ L   +P + ++P   R  SN+   +        + L      R+ 
Sbjct: 17  AANILRDKFLNLVEQLKKGEPLVMEIP--MRTLSNAIYDE----KRKLLLLGEKKLRRNF 70

Query: 61  TKSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKL-------------LCDSPEYFT 107
              N AK F++   +    +  L  ++  T R+L+Y+              +      + 
Sbjct: 71  LDLNEAKRFMQTVLMASIIYDALVSDEYPTIRDLYYRGKHSLLLKSIEGNKIVSEENTWD 130

Query: 108 SQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSIS 167
            Q + +  I D+       R  + I++  +G V G L ++  N +VID S  G   Y+I 
Sbjct: 131 EQKESDSVIVDIEVFTSLLREEMLILSKEKGKVVGNLRIRSGN-DVIDLSKTGHGAYAIE 189

Query: 168 GDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHR 227
               L++ +D   DA +++VVEK A+FQ+L     + Q  SILIT+ G PD ATR  + R
Sbjct: 190 PTPDLIDFID--VDAEFVLVVEKDAVFQQLHRAGFWKQYKSILITSAGQPDRATRRFVRR 247

Query: 228 LNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDV---- 282
           LN     LP+  L D +P G  I   F+ GSI +  E+ R A  + K+LG+   D+    
Sbjct: 248 LNEE-LKLPVYILTDADPYGWYIFSVFRIGSISLSYESERLATPDAKFLGVSMGDIFGNS 306

Query: 283 -------QLIPEQSLLPLKPRDLQIARSLMSSEILQEN-YKEELSLMVHNGQRAEVEALY 334
                  +   +  ++  K  D++ A  + + E  +   ++EE++  +    + E+EA+ 
Sbjct: 307 RKKPYLSEAERKNYIIKAKDADIKRAEEIKNYEWFKTKAWQEEINTFLQRKAKLEIEAMA 366

Query: 335 FHGYDYLG-KYIAKKIVQADYI 355
             G  +L  +YI +KI   DYI
Sbjct: 367 SKGLKFLAFQYIPEKITNKDYI 388

>2q2e_A Type II DNA topoisomerase VI subunit A; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} Length = 369

 Score =  222 bits (565), Expect = 7e-70
 Identities = 77/364 (21%), Positives = 137/364 (37%), Gaps = 19/364 (5%)

Query: 1   VRARIEVSVINFLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSL 60
            R ++                    LP  +R  +N   S     +            RS 
Sbjct: 16  AREKLLEIAEKIYNQFEEEVVPSVSLP--SRTKANLEYSD----ESDVWVYGDRESERSA 69

Query: 61  TKSN-AAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDV 119
                A +     +       + L++ +  T REL+Y         F  Q + +R I+D+
Sbjct: 70  KTVKGAFQLLKTTYATDFLINEHLARNRGSTLRELYYISEGWDYAKFKEQGESDRLIEDL 129

Query: 120 IALLHCSRFSLGIVASSRGLVAGRLMLQEPN----QEVIDCS-ACGSSGYSISGDLSLLE 174
             L    R    +     G      +         +  I C    G  GY I  ++  +E
Sbjct: 130 EILTSLQREYFHMRPEEDGATMFGPIEITEQTKRGERNIHCQKDVGEGGYQIPFNVENIE 189

Query: 175 KLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPD 234
                 DA  II +E   ++ RL E+       +IL+  KG P  +TR ++ R+N     
Sbjct: 190 FQK--HDASMIIAIETGGMYARLMENGFDEAYNAILVHLKGQPARSTRRIIKRMNEELG- 246

Query: 235 LPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPL 293
           +P+    D +P    I  +  +G+I     +   A    K+LGL+  D+      S   L
Sbjct: 247 IPVAVFTDGDPWSYRIYASVAYGAIKSAHLSEFMATPAAKFLGLQPSDIVEYE-LSTDKL 305

Query: 294 KPRDLQIARSLMSSEILQENY-KEELSLMVHNGQRAEVEALYFHGYDYLGK-YIAKKIVQ 351
             +D+   RS +S    + +Y KE++ L +  G++AE +A    G D++ + Y+  ++ +
Sbjct: 306 TEQDVSALRSELSDPRFESDYWKEQIQLQLDIGKKAEQQAFAGKGLDFVTEVYLPNRLKE 365

Query: 352 ADYI 355
              I
Sbjct: 366 MGMI 369

>1d3y_A DNA topoisomerase VI A subunit; DNA binding protein, SPO11 homolog; HET: DNA; 2.00A {Methanocaldococcus jannaschii} SCOP: e.12.1.1 Length = 301

 Score =  217 bits (552), Expect = 9e-69
 Identities = 87/301 (28%), Positives = 142/301 (47%), Gaps = 15/301 (4%)

Query: 64  NAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALL 123
           N AK F +  K++E   Q+L  +   T RE +Y         F  Q   N  I+D+ A L
Sbjct: 3   NQAKIFAQTTKMLEFAKQLLETDDFSTLREAYYVSKNWGEARFDDQQASNNVIEDLEAAL 62

Query: 124 HCSRFSLGIVASSRGLV-AGRLMLQEPNQE---VIDCSACGSSGYSISGDLSLLEKLDLK 179
              R  LG +    G    G L + E   E   V+DC+  G+  Y+I  D   + KL+L+
Sbjct: 63  GVLREHLGFIPEEDGSSVVGPLKIIEETPEGELVVDCTKLGTGAYNIPND---VTKLNLE 119

Query: 180 TDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILA 239
           TDA +I+ +E   +F RL  +  +++   IL++ KG P  ATR  + RL+    DLP+L 
Sbjct: 120 TDADFILAIETSGMFARLNAERFWDKHNCILVSLKGVPARATRRFIKRLHEE-HDLPVLV 178

Query: 240 LVDWNPAG-LAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRD 297
             D +P G L I  T K GS      A + +    + +G+   D+         PLK +D
Sbjct: 179 FTDGDPYGYLNIYRTLKVGSGKAIHLADKLSIPAARLIGVTPQDIIDYD-LPTHPLKEQD 237

Query: 298 LQIARSLMSSEILQEN---YKEELSLMVHNGQRAEVEALYFHGYDYL-GKYIAKKIVQAD 353
           ++  +  + ++    +   +++ L  M+  G RAE ++L  +G  Y+   Y+ +KI    
Sbjct: 238 IKRIKDGLKNDDFVRSFPEWQKALKQMLDMGVRAEQQSLAKYGLKYVVNTYLPEKIKDES 297

Query: 354 Y 354
            
Sbjct: 298 T 298

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

 Score = 49.9 bits (118), Expect = 1e-06
 Identities = 66/422 (15%), Positives = 129/422 (30%), Gaps = 133/422 (31%)

Query: 5   IEVSVINFLK------ILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTR 58
           + V    F+       + + P   +S   + +   S   VS  L   + W  LS      
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR--LFWTLLSK----- 74

Query: 59  SLTKSNAAKAFVRVWKVMETCFQILSQ--EKRVTQRELFYKL-------LCDSPEYFTSQ 109
              +    + FV   +V+   ++ L    +    Q  +  ++       L +  + F ++
Sbjct: 75  ---QEEMVQKFVE--EVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF-AK 128

Query: 110 LQVNRTIQDVIALLHCSRFSLGIVASSRGLV------AGR--LMLQEPNQEVIDCSACG- 160
             V+R +Q  + L    R +L  +  ++ ++      +G+  + L       + C     
Sbjct: 129 YNVSR-LQPYLKL----RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183

Query: 161 ----SSGYSISGD--LSLLEKLDLKTDARYI--------IVVEKHAIFQRLTEDFVFNQI 206
               +     S +  L +L+KL  + D  +         I +  H+I   L         
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243

Query: 207 PS----------------------ILIT-----------------------AKGY-PDIA 220
            +                      IL+T                       +    PD  
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303

Query: 221 TRFLLHRLNRAFPDLPILALVDWNPAGLAIL--------CTFKFGSIGMGMEAYRYACNV 272
              LL  L+    DLP   L   NP  L+I+         T+                  
Sbjct: 304 KSLLLKYLDCRPQDLPREVL-TTNPRRLSIIAESIRDGLATWDN---------------- 346

Query: 273 KWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQENYK---EELSLMVHNGQRAE 329
            W  +  D +  I E SL  L+P + +  +      +   +       LSL+  +  +++
Sbjct: 347 -WKHVNCDKLTTIIESSLNVLEPAEYR--KMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403

Query: 330 VE 331
           V 
Sbjct: 404 VM 405

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

 Score = 41.8 bits (97), Expect = 3e-04
 Identities = 61/345 (17%), Positives = 108/345 (31%), Gaps = 105/345 (30%)

Query: 12  FLKILNSPDPAISDLPLINRKSSNSRVSQGLLTDVSWI--FLSHSFCTRSLTKSNAAKAF 69
            LK L+       DLP          V       +S I   +     T    K       
Sbjct: 307 LLKYLDCR---PQDLP--------REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL 355

Query: 70  VRVWKVMETCFQILSQEKRVTQRELFYKL--LCDS---PEYFTSQLQVNRTIQDVIALLH 124
             +   +E+   +L        R++F +L     S   P    S +  +    DV+ +++
Sbjct: 356 TTI---IESSLNVLEPA---EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 125 -CSRFSL-------------GIVASSRGLVAGRLMLQEPNQEVIDCSACGSSGYSISGDL 170
              ++SL              I    +  +     L   ++ ++D        Y+I    
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL---HRSIVDH-------YNIPKTF 459

Query: 171 SLLEKLDLKTDARYI---IV--------VEKHAIFQRLTEDFVFNQIPSILITAKGYPDI 219
              + +    D +Y    I          E+  +F+ +  DF                  
Sbjct: 460 DSDDLIPPYLD-QYFYSHIGHHLKNIEHPERMTLFRMVFLDF------------------ 500

Query: 220 ATRFLLHRLNRAFPDLPILALVDWNPAG--LAILCTFKFGSIGMGMEAYR-YAC--NVKW 274
             RFL  ++              WN +G  L  L   KF         Y+ Y C  + K+
Sbjct: 501 --RFLEQKIRHDST--------AWNASGSILNTLQQLKF---------YKPYICDNDPKY 541

Query: 275 LGLRGDDVQLIP--EQSLLPLKPRDL-QIARSLMSSEILQENYKE 316
             L    +  +P  E++L+  K  DL +IA       I +E +K+
Sbjct: 542 ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQ 586

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	355
2zbk_A	389	Type II DNA topoisomerase VI subunit A; DNA bindin	100.0
2q2e_A	369	Type II DNA topoisomerase VI subunit A; DNA-bindin	100.0
1d3y_A	301	DNA topoisomerase VI A subunit; DNA binding protei	100.0
2fcj_A	119	Small toprim domain protein; structural genomics,	81.39

>2zbk_A Type II DNA topoisomerase VI subunit A; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae}

Probab=100.00  E-value=6.3e-89  Score=675.69  Aligned_cols=343  Identities=27%  Similarity=0.423  Sum_probs=294.2

Q ss_pred             ChhHHHHHHHHHH----HHHcCCC-CCCccccccccCCCCceeccccccccceeeecCceeEEeecCchhHHHHHHHHHH
Q 037694            1 VRARIEVSVINFL----KILNSPD-PAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKV   75 (355)
Q Consensus         1 ~~~~Ie~~v~~~l----~~L~~~~-p~~~~l~~~~R~~~n~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~v   75 (355)
                      |+++||+++.+++    +++.+|+ |.   +++|+|+++|+.||+.    .+.+.+|++.+.|++.+.++|++|+++++|
T Consensus        13 ~~~~i~~~~~~~~~~~~~~~~~~~~p~---~~~p~r~~~n~~~d~~----~~~~~~~~~~~~r~~~~~~~~~~f~~~~~v   85 (389)
T 2zbk_A           13 ARRKAANILRDKFLNLVEQLKKGEPLV---MEIPMRTLSNAIYDEK----RKLLLLGEKKLRRNFLDLNEAKRFMQTVLM   85 (389)
T ss_dssp             HHHHHHHHTTHHHHHHHCCCCCSSCCE---ECCCC-------------------------CCEETTSSTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCE---EeccccCcCceeeccc----cceEEecCceeEEecCCHHHHHHHHHHHHH
Confidence            5789999999999    9999999 66   7889999999999974    346679999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCccccceeccccC-------------CCccccCchHHHHHHHHHHHHhhccCccccCceecCCeeEEE
Q 037694           76 METCFQILSQEKRVTQRELFYKLLC-------------DSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLVAG  142 (355)
Q Consensus        76 l~~i~~~l~~~~~~T~RdiYY~~~~-------------~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv~G  142 (355)
                      ++++|++|.+|+++|+|||||++++             |++++|++|++||++|+|||++++++|++|||+|++||+|+|
T Consensus        86 l~~i~~~l~~~~~~T~RdiYY~~~~~~~~~~~~~~~~~~~~~~F~~Q~~~d~~I~di~~~l~~~R~~L~I~a~~kGlv~G  165 (389)
T 2zbk_A           86 ASIIYDALVSDEYPTIRDLYYRGKHSLLLKSIEGNKIVSEENTWDEQKESDSVIVDIEVFTSLLREEMLILSKEKGKVVG  165 (389)
T ss_dssp             THHHHHHHHTTCCCCHHHHHSCCSCSCCSCCCC-------CCSCCSHHHHHHHHHHHHHHHSCCHHHHTCCCCCCCCBEE
T ss_pred             HHHHHHHHHcCCccchHHhhccCcccccccccccccccchhhhcCCHHHHHHHHHHHHHHHCCChhhcceEecCCcEEEe
Confidence            9999999999999999999999776             666699999999999999999999999999999999999999


Q ss_pred             eeEEecCCCceEecccCCCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHH
Q 037694          143 RLMLQEPNQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATR  222 (355)
Q Consensus       143 ~l~i~~~~~~~id~s~~g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR  222 (355)
                      ++++.+ +|+.+||+.+|++|++||++++.++.  +.++|++||||||+|+|++|++++|+++.|||+||||||||++||
T Consensus       166 ~l~i~~-~~~~id~~~~g~~g~~Ip~~~~~i~~--i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~ilIt~kG~Pd~aTR  242 (389)
T 2zbk_A          166 NLRIRS-GNDVIDLSKTGHGAYAIEPTPDLIDF--IDVDAEFVLVVEKDAVFQQLHRAGFWKQYKSILITSAGQPDRATR  242 (389)
T ss_dssp             SEEEEE-TTEEEESSCCTTCCBCCCSCCSSEEE--EEECCSCEEEESCHHHHHHHHTTTHHHHTTCEEEECCSSCCTTHH
T ss_pred             eeEEEe-CCcEEEeecCCCCceeCCccHHHhhc--cccCccEEEEEecHHHHHHHHHhCcCccCCEEEEECCCCCCHHHH
Confidence            999998 67899999988899999988877654  368999999999999999999999999899999999999999999


Q ss_pred             HHHHHHHhhCCCCCEEEEecCChhhHHHHHHhhcCCccccccccccccc-ceeecccccccccCCCCccCCCCHHH----
Q 037694          223 FLLHRLNRAFPDLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQLIPEQSLLPLKPRD----  297 (355)
Q Consensus       223 ~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~~~-~~wlGv~~~di~~l~~~~~~pLt~~D----  297 (355)
                      +||++|++++ ++|||+|+|+||||++|+++|+|||++++|+++.+++| ++|+|++++|+...+. ...|||++|    
T Consensus       243 ~fL~~L~~~~-~lpv~~l~D~DP~Gi~I~~tyk~GS~~~a~~~~~l~~P~l~~lG~~~~di~~~~~-~~~~Lt~~Dr~~~  320 (389)
T 2zbk_A          243 RFVRRLNEEL-KLPVYILTDADPYGWYIFSVFRIGSISLSYESERLATPDAKFLGVSMGDIFGNSR-KKPYLSEAERKNY  320 (389)
T ss_dssp             HHHHHHHHHS-CCCEEEECCSSHHHHHHHHHHTSCSCC-----CCCSCSSCEECCCCHHHHHCCSS-SCCSSCHHHHHHH
T ss_pred             HHHHHHHHhc-CCCEEEEecCChhhhhhHHHHhhcchhhhhhhhcccCCceEEcCCcHHHHHhccc-ccccCChhhhhhH
Confidence            9999999998 89999999999999999999999999999999887665 9999999999986432 248999999    


Q ss_pred             -HHHHHHhhhhh-------hhh-HHHHHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCCCC
Q 037694          298 -LQIARSLMSSE-------ILQ-ENYKEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQADYI  355 (355)
Q Consensus       298 -~~~l~~ll~~~-------~~~-~~w~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~~i  355 (355)
                       ++++++++++|       +++ +.|++|+++|++.|+|+|||||+++|++|++ +|||+||.++|||
T Consensus       321 ~~k~l~~ll~~~~~~~~~~~~~~~~w~~el~~Ml~~~~KaE~Eal~~~g~~fl~~~yl~~Ki~~~~~i  388 (389)
T 2zbk_A          321 IIKAKDADIKRAEEIKNYEWFKTKAWQEEINTFLQRKAKLEIEAMASKGLKFLAFQYIPEKITNKDYI  388 (389)
T ss_dssp             CEECCHHHHHHHHHHTTSTTTTTTTTTHHHHHHHHHCEECCHHHHHTTCTHHHHHTHHHHHHHHTCSB
T ss_pred             HHHHHHHHHhchhhcccchhccCHHHHHHHHHHHHhCceeeeHHhhhcCchhhHHHHHHHHHhcCCCc
Confidence             89999999988       663 4899999999999999999999999999999 7999999999997

>2q2e_A Type II DNA topoisomerase VI subunit A; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei}

Probab=100.00  E-value=9e-88  Score=664.82  Aligned_cols=344  Identities=23%  Similarity=0.327  Sum_probs=285.8

Q ss_pred             ChhHHHHHHHHHHHHHcCCC-CCCccccccccCCCCceeccccccccceeeecCceeEEeecCchhHHHHHHHHHHHHHH
Q 037694            1 VRARIEVSVINFLKILNSPD-PAISDLPLINRKSSNSRVSQGLLTDVSWIFLSHSFCTRSLTKSNAAKAFVRVWKVMETC   79 (355)
Q Consensus         1 ~~~~Ie~~v~~~l~~L~~~~-p~~~~l~~~~R~~~n~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~f~~~~~vl~~i   79 (355)
                      |+++||+++.+++++|.+|+ |.   +++|+|+++|+.||+.    .+.+.+|++.+.|++.+.+++++|+++++||+++
T Consensus        16 ~~~~i~~~~~~~~~~l~~~~~p~---~~i~~r~~~n~~~d~~----~~~~~~~~~~~~r~~~~~~~~~~~~~~~~vl~~i   88 (369)
T 2q2e_A           16 AREKLLEIAEKIYNQFEEEVVPS---VSLPSRTKANLEYSDE----SDVWVYGDRESERSAKTVKGAFQLLKTTYATDFL   88 (369)
T ss_dssp             CCHHHHHHHHHHHHTTHHHHTTS---CCCCC----------------------------CCSSTHHHHHHHCC-HHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCe---EEeeccccCceeeccc----CCeeeecCceeeEecCCHHHHHHHHHHHHHHHHH
Confidence            67899999999999999998 76   7889999999999974    3466789999999999999999999999999999


Q ss_pred             -HHHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCceecCCe-eEEEeeEEecC---CCceE
Q 037694           80 -FQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRG-LVAGRLMLQEP---NQEVI  154 (355)
Q Consensus        80 -~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KG-lv~G~l~i~~~---~~~~i  154 (355)
                       |+++.+|+++|+|||||++++|++++|++|++||++|+|||++++++|++|||+|++|| +|+|++++...   +|..|
T Consensus        89 ~~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~I~di~~~l~~~R~~L~I~a~~kG~lv~G~l~i~~~~~~~~~~i  168 (369)
T 2q2e_A           89 INEHLARNRGSTLRELYYISEGWDYAKFKEQGESDRLIEDLEILTSLQREYFHMRPEEDGATMFGPIEITEQTKRGERNI  168 (369)
T ss_dssp             TTTSSTTCCCEEHHHHHHHTSSSTTSCCSCTTTHHHHHHHHHHHSCCCGGGGTEECSSCCCCEECSCCCCCCSSCC----
T ss_pred             HHHHHhcCCccchHHhhccCcccchhhccCHHHHHHHHHHHHHHHCCCHHHcceeccCCceEEEEeEEEEEEecCCCcEE
Confidence             99999999999999999987777799999999999999999999999999999999999 89999999875   46899


Q ss_pred             eccc-CCCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCC
Q 037694          155 DCSA-CGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFP  233 (355)
Q Consensus       155 d~s~-~g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~  233 (355)
                      ||+. +|.+|++||++++.++.  +.++|++||||||+|+|++|++++|+++.+||+||||||||++||+||++|++++ 
T Consensus       169 d~~~~~g~~g~~Ip~~~~~i~~--i~~~~~~VlvVEk~avF~~L~~~~~~~~~~~ilIt~kG~Pd~atR~~L~~L~~~~-  245 (369)
T 2q2e_A          169 HCQKDVGEGGYQIPFNVENIEF--QKHDASMIIAIETGGMYARLMENGFDEAYNAILVHLKGQPARSTRRIIKRMNEEL-  245 (369)
T ss_dssp             CCCC-CCSSCCCCCSCSSSCCC--CCCCCCCEEEECCTTHHHHHHHSCCTTTTCCCEEECCSSCCHHHHHHHHHHTTSS-
T ss_pred             EecccCCCCCeeCCccHHHhhc--ccCCccEEEEEechHHHHHHHHhccCccCCEEEEECCCCCCHHHHHHHHHHHHhc-
Confidence            9998 88899999997776654  4688999999999999999999999999999999999999999999999999988 


Q ss_pred             CCCEEEEecCChhhHHHHHHhhcCCcccccccccccc-cceeecccccccccCCCCccCCCCHHHHHHHHHhhhhhhhh-
Q 037694          234 DLPILALVDWNPAGLAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRDLQIARSLMSSEILQ-  311 (355)
Q Consensus       234 ~lpv~~l~D~DP~Gi~I~~~yk~GS~~~~~~~~~~~~-~~~wlGv~~~di~~l~~~~~~pLt~~D~~~l~~ll~~~~~~-  311 (355)
                      ++|||+|+|+||||++|+++|+|||++++|+++.+++ +++|+|++++|+..... ...|||++|+++++++|++|+++ 
T Consensus       246 ~~pv~~l~D~Dp~Gi~I~~tyk~GS~~~~~~~~~l~~p~~~~lgm~~~d~~~~~~-~~~~Lt~~D~k~l~~ll~~~~~~~  324 (369)
T 2q2e_A          246 GIPVAVFTDGDPWSYRIYASVAYGAIKSAHLSEFMATPAAKFLGLQPSDIVEYEL-STDKLTEQDVSALRSELSDPRFES  324 (369)
T ss_dssp             CCCEEEECCSSHHHHTTTHHHHSCC--------CCCCTTCBCCSSCTTTTTSSCC-CCCCCCHHHHHHHTTTTSSCSSCC
T ss_pred             CCcEEEEecCChhHHHHHHHHhccchhhhhhhcccCCCccEECCCCHHHHHhccc-ccCCCCHHHHHHHHHHhhCcccCC
Confidence            8999999999999999999999999999999987765 59999999999986432 34899999999999999999884 


Q ss_pred             HHHHHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCCCC
Q 037694          312 ENYKEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQADYI  355 (355)
Q Consensus       312 ~~w~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~~i  355 (355)
                      +.|++|+++|++.|+|+|||||+++|++|++ +|||+||.++|||
T Consensus       325 ~~w~~el~~ml~~~~K~EqEal~~~g~~~~~~~yl~~Ki~~~~~~  369 (369)
T 2q2e_A          325 DYWKEQIQLQLDIGKKAEQQAFAGKGLDFVTEVYLPNRLKEMGMI  369 (369)
T ss_dssp             TTTTHHHHHHHHHCCCCCSGGGGGGCTTSTTTTHHHHHHHSCC--
T ss_pred             HHHHHHHHHHHHhCcEeeehhhhhcCchhhHHHHHHHHHhcCCcC
Confidence            4899999999999999999999999999998 7999999999997

>1d3y_A DNA topoisomerase VI A subunit; DNA binding protein, SPO11 homolog; HET: DNA; 2.00A {Methanocaldococcus jannaschii} SCOP: e.12.1.1

Probab=100.00  E-value=1e-85  Score=634.02  Aligned_cols=289  Identities=29%  Similarity=0.457  Sum_probs=259.7

Q ss_pred             CchhHHHHHHHHHHHHHHHHHHhcCCCccccceeccccCCCccccCchHHHHHHHHHHHHhhccCccccCceecCCe-eE
Q 037694           62 KSNAAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHCSRFSLGIVASSRG-LV  140 (355)
Q Consensus        62 ~~~~~~~f~~~~~vl~~i~~~l~~~~~~T~RdiYY~~~~~~~~lF~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KG-lv  140 (355)
                      |++++++|+++++||+++|++|.+|+++|+|||||++++|++++|++|++||++|+|||++++++|++|||+|++|| +|
T Consensus         1 ~~~~~~~~~~~~~vl~~i~~~l~~~~~~T~RdiYY~~~~~~~~~F~~Q~~~d~~i~di~~~l~~~R~~L~i~a~~kG~lv   80 (301)
T 1d3y_A            1 TVNQAKIFAQTTKMLEFAKQLLETDDFSTLREAYYVSKNWGEARFDDQQASNNVIEDLEAALGVLREHLGFIPEEDGSSV   80 (301)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHTTCCEEHHHHHHHGGGSGGGCCSSHHHHHHHHHHHHHHHTCCGGGGTEECSSCCCEE
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHcCCccchhhhhccCCccchhhccCHHHHHHHHHHHHHHHCCCHHHCCeeeCCCceEE
Confidence            45789999999999999999999999999999999987777899999999999999999999999999999999999 99


Q ss_pred             EEeeEEecC---CCceEecccCCCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCC
Q 037694          141 AGRLMLQEP---NQEVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYP  217 (355)
Q Consensus       141 ~G~l~i~~~---~~~~id~s~~g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyP  217 (355)
                      +|++++.+.   ++..|||+.+|++|++||++++.+   ++.++|+|||||||+|+|+||++++|+++.|||||||||||
T Consensus        81 ~G~l~i~~~~~~~~~~id~~~~~~~g~~Ip~~~~~i---~~~~~a~~VLvVEK~avF~rL~~~~~~~~~~~ilIt~kGyP  157 (301)
T 1d3y_A           81 VGPLKIIEETPEGELVVDCTKLGTGAYNIPNDVTKL---NLETDADFILAIETSGMFARLNAERFWDKHNCILVSLKGVP  157 (301)
T ss_dssp             ESSCEEEEEETTEEEEEETTSCTTSEEECCSCCTTC---EEECCCSEEEEESCHHHHHHHHHTTHHHHTTEEEEECCSSC
T ss_pred             EeeeEEEEeecCCCcEEEeecCCCCceecCccHHhh---eeccCccEEEEEechHHHHHHHHhcccccCCEEEEECCCCC
Confidence            999999764   357999998888999999987654   34799999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHhhCCCCCEEEEecCChhhH-HHHHHhhcCCccccccccccccc-ceeecccccccccCCCCccCCCCH
Q 037694          218 DIATRFLLHRLNRAFPDLPILALVDWNPAGL-AILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQLIPEQSLLPLKP  295 (355)
Q Consensus       218 d~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi-~I~~~yk~GS~~~~~~~~~~~~~-~~wlGv~~~di~~l~~~~~~pLt~  295 (355)
                      |++||+||++|++++ ++|||+|||+||||+ +||++|||||++++|+++.+++| ++|+|++|+|+...+. ..+|||+
T Consensus       158 d~aTR~fl~~L~~~~-~lpv~~l~D~DP~G~~~I~~tyk~GS~~~~~~~~~l~~p~~~wlGv~~sdi~~~~~-~~~~Lt~  235 (301)
T 1d3y_A          158 ARATRRFIKRLHEEH-DLPVLVFTDGDPYGYLNIYRTLKVGSGKAIHLADKLSIPAARLIGVTPQDIIDYDL-PTHPLKE  235 (301)
T ss_dssp             CHHHHHHHHHHHHHH-TCCEEEECCBSHHHHHTHHHHHHC---------CTTCCTTCEEEESCHHHHHHTTC-CCEECCH
T ss_pred             CHHHHHHHHHHHHhc-CCCEEEEecCChHHHHHHHHHHHhCchhhccccccccCCccEEcCCCHHHHHhccc-ccCcCCH
Confidence            999999999999998 899999999999999 99999999999999999888765 9999999999986432 3589999


Q ss_pred             HHHHHHHHhhhhhhhhH---HHHHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCC-CC
Q 037694          296 RDLQIARSLMSSEILQE---NYKEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQAD-YI  355 (355)
Q Consensus       296 ~D~~~l~~ll~~~~~~~---~w~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~-~i  355 (355)
                      +|++++++||++|+++.   +|++||++|++.|+||||||++++|++|++ +|||+||.+++ ||
T Consensus       236 ~D~~~l~~ll~~~~~~~~~~~w~~el~~ml~~~~KaEieal~~~g~~f~~~~yl~~Ki~~~~~~~  300 (301)
T 1d3y_A          236 QDIKRIKDGLKNDDFVRSFPEWQKALKQMLDMGVRAEQQSLAKYGLKYVVNTYLPEKIKDESTWL  300 (301)
T ss_dssp             HHHHHHHHHHHHCHHHHTCHHHHHHHHHHHHHTEEBCGGGGGGGCTTHHHHTHHHHHHHCGGGCC
T ss_pred             HHHHHHHHHhhCccccCcHHHHHHHHHHHHHhCCEEEEehhhhcCccchHHHHHHHHHhcCCcCC
Confidence            99999999999999863   599999999999999999999999999998 79999999999 97

>2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A*

Probab=81.39  E-value=7.3  Score=31.74  Aligned_cols=67  Identities=19%  Similarity=0.191  Sum_probs=48.2

Q ss_pred             cEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          183 RYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       183 ~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      +-|+|||=.+=-.+|.+-+-.   ++=.|.+.|+-+..+...+..+..   .=.|++|+|+|.-|-.|....+
T Consensus         5 ~~vIVVEGk~D~~~L~~~~~~---~~~iI~t~Gsi~~~~l~~I~~~~~---~r~VIi~TD~D~~GekIRk~i~   71 (119)
T 2fcj_A            5 EKVIIVEGRSDKQKVAAVLNE---PVVIVCTNGTISDARLEELADELE---GYDVYLLADADEAGEKLRRQFR   71 (119)
T ss_dssp             CEEEEESSHHHHHHHHHHBSS---CCEEEECCSCCCHHHHHHHHHHTT---TSEEEEECCSSHHHHHHHHHHH
T ss_pred             CeEEEEechHHHHHHHHhcCC---CCCEEEeCCccCHHHHHHHHHHhc---CCCEEEEECCCccHHHHHHHHH
Confidence            569999988777788665411   355666677755556666666654   3479999999999999987654

---

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	355
d1d3ya_	298	e.12.1.1 (A:) DNA topoisomerase IV, alpha subunit	8e-76

>d1d3ya_ e.12.1.1 (A:) DNA topoisomerase IV, alpha subunit {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 298

class: Multi-domain proteins (alpha and beta)
fold: DNA topoisomerase IV, alpha subunit
superfamily: DNA topoisomerase IV, alpha subunit
family: DNA topoisomerase IV, alpha subunit
domain: DNA topoisomerase IV, alpha subunit
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score =  233 bits (596), Expect = 8e-76
 Identities = 87/298 (29%), Positives = 142/298 (47%), Gaps = 15/298 (5%)

Query: 66  AKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEYFTSQLQVNRTIQDVIALLHC 125
           AK F +  K++E   Q+L  +   T RE +Y         F  Q   N  I+D+ A L  
Sbjct: 2   AKIFAQTTKMLEFAKQLLETDDFSTLREAYYVSKNWGEARFDDQQASNNVIEDLEAALGV 61

Query: 126 SRFSLGIVASSRGLV-AGRLMLQEPNQE---VIDCSACGSSGYSISGDLSLLEKLDLKTD 181
            R  LG +    G    G L + E   E   V+DC+  G+  Y+I  D   + KL+L+TD
Sbjct: 62  LREHLGFIPEEDGSSVVGPLKIIEETPEGELVVDCTKLGTGAYNIPND---VTKLNLETD 118

Query: 182 ARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALV 241
           A +I+ +E   +F RL  +  +++   IL++ KG P  ATR  + RL+    DLP+L   
Sbjct: 119 ADFILAIETSGMFARLNAERFWDKHNCILVSLKGVPARATRRFIKRLHEE-HDLPVLVFT 177

Query: 242 DWNPAG-LAILCTFKFGSIGMGMEAYRYAC-NVKWLGLRGDDVQLIPEQSLLPLKPRDLQ 299
           D +P G L I  T K GS      A + +    + +G+   D+ +  +    PLK +D++
Sbjct: 178 DGDPYGYLNIYRTLKVGSGKAIHLADKLSIPAARLIGVTPQDI-IDYDLPTHPLKEQDIK 236

Query: 300 IARSLMSSEILQENYKE---ELSLMVHNGQRAEVEALYFHGYDYL-GKYIAKKIVQAD 353
             +  + ++    ++ E    L  M+  G RAE ++L  +G  Y+   Y+ +KI    
Sbjct: 237 RIKDGLKNDDFVRSFPEWQKALKQMLDMGVRAEQQSLAKYGLKYVVNTYLPEKIKDES 294

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	355
d1d3ya_	298	DNA topoisomerase IV, alpha subunit {Archaeon Meth	100.0
d2fcja1	114	Hypothetical protein RBSTP2199 {Bacillus stearothe	88.95

>d1d3ya_ e.12.1.1 (A:) DNA topoisomerase IV, alpha subunit {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Multi-domain proteins (alpha and beta)
fold: DNA topoisomerase IV, alpha subunit
superfamily: DNA topoisomerase IV, alpha subunit
family: DNA topoisomerase IV, alpha subunit
domain: DNA topoisomerase IV, alpha subunit
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=100.00  E-value=2e-79  Score=587.28  Aligned_cols=282  Identities=30%  Similarity=0.487  Sum_probs=245.3

Q ss_pred             hHHHHHHHHHHHHHHHHHHhcCCCccccceeccccCCCccc----cCchHHHHHHHHHHHHhhccCccccCceecCCeeE
Q 037694           65 AAKAFVRVWKVMETCFQILSQEKRVTQRELFYKLLCDSPEY----FTSQLQVNRTIQDVIALLHCSRFSLGIVASSRGLV  140 (355)
Q Consensus        65 ~~~~f~~~~~vl~~i~~~l~~~~~~T~RdiYY~~~~~~~~l----F~~Q~~~d~~i~di~~~l~~~R~~L~I~a~~KGlv  140 (355)
                      +|++||++++||+++|++|++|+++|+|||||+    ++++    |++|++||++|+|||++|||+|++|||+|++||++
T Consensus         1 ~a~kfa~~l~vl~~i~~~l~~~~~~T~RdiYY~----~~~l~~~~F~~Q~~vd~~I~di~~~l~~~R~~L~v~as~KGlv   76 (298)
T d1d3ya_           1 QAKIFAQTTKMLEFAKQLLETDDFSTLREAYYV----SKNWGEARFDDQQASNNVIEDLEAALGVLREHLGFIPEEDGSS   76 (298)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTCCEEHHHHHHH----GGGSGGGCCSSHHHHHHHHHHHHHHHTCCGGGGTEECSSCCCE
T ss_pred             ChHHHHHHHHHHHHHHHHHHcCCcceeHHheee----ccccccccCCCHHHHHHHHHHHHHHHCCCHHHCCeEecCCCeE
Confidence            589999999999999999999999999999999    5666    99999999999999999999999999999999997


Q ss_pred             -EEeeEEecCCC---ceEecccCCCCccccCCChhhhhhhccccCccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCC
Q 037694          141 -AGRLMLQEPNQ---EVIDCSACGSSGYSISGDLSLLEKLDLKTDARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGY  216 (355)
Q Consensus       141 -~G~l~i~~~~~---~~id~s~~g~~g~~Ip~~~~~i~~~~i~~~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGy  216 (355)
                       .|++.+.+.++   ..+||+..+.+++.+|...+   .+.+.++|+|||||||||+|+||++++++.+.|||+||||||
T Consensus        77 ~~g~~~~~~~~~~~~~~id~~~~~~~~~~~~~~~~---~~~~~~~a~~vLVVEKeavF~rL~~~~~~~~~~~ilitgkGy  153 (298)
T d1d3ya_          77 VVGPLKIIEETPEGELVVDCTKLGTGAYNIPNDVT---KLNLETDADFILAIETSGMFARLNAERFWDKHNCILVSLKGV  153 (298)
T ss_dssp             EESSCEEEEEETTEEEEEETTSCTTSEEECCSCCT---TCEEECCCSEEEEESCHHHHHHHHHTTHHHHTTEEEEECCSS
T ss_pred             EeCcEEEEEecCCCceEEEcccccCCCccCccccc---eeeeeccCcEEEEEeehhHHHHHHhcCcccccceeeeccCCC
Confidence             56777765433   37999987766676665443   345689999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHHhhCCCCCEEEEecCChhhH-HHHHHhhcCCccccccccccccc-ceeecccccccccCCCCccCCCC
Q 037694          217 PDIATRFLLHRLNRAFPDLPILALVDWNPAGL-AILCTFKFGSIGMGMEAYRYACN-VKWLGLRGDDVQLIPEQSLLPLK  294 (355)
Q Consensus       217 Pd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi-~I~~~yk~GS~~~~~~~~~~~~~-~~wlGv~~~di~~l~~~~~~pLt  294 (355)
                      ||++||+||++|++++ ++|+|+|+|+||||+ .||++|+|||.+++|+++.+++| ++|+|++++|+..... ..+|||
T Consensus       154 Pd~~TR~fL~~L~~~~-~lp~~~l~D~Dp~G~~~I~~~yk~GS~~~~~~~~~~~~p~l~wlG~~~~d~~~~~~-~~~~Lt  231 (298)
T d1d3ya_         154 PARATRRFIKRLHEEH-DLPVLVFTDGDPYGYLNIYRTLKVGSGKAIHLADKLSIPAARLIGVTPQDIIDYDL-PTHPLK  231 (298)
T ss_dssp             CCHHHHHHHHHHHHHH-TCCEEEECCBSHHHHHTHHHHHHC---------CTTCCTTCEEEESCHHHHHHTTC-CCEECC
T ss_pred             CCHHHHHHHHHHhhcc-CCCEEEEEcCCcchHHHHHHHHHHHhhhcccccccccCCCCEEeeccHHHHhhccc-ccCccc
Confidence            9999999999999986 799999999999996 68999999999999999888765 9999999999876543 357999


Q ss_pred             HHHHHHHHHhhhhhhhhH---HHHHHHHHHHHcCCeEeeeehhhcCCchHH-HHHHHHHhcCC-CC
Q 037694          295 PRDLQIARSLMSSEILQE---NYKEELSLMVHNGQRAEVEALYFHGYDYLG-KYIAKKIVQAD-YI  355 (355)
Q Consensus       295 ~~D~~~l~~ll~~~~~~~---~w~~el~~ml~~~~KaEiEal~~~g~~fl~-~Yl~~Ki~~~~-~i  355 (355)
                      ++|++++++++++|.+.+   +|++||++|++.|+|||||||++.|.+|++ +|||+||++++ ||
T Consensus       232 ~~D~k~~~~ll~~~~~~~~~~~w~~EL~~ml~~~~KaEiEal~~~~~~f~~~~Yl~~Ki~~~~~~i  297 (298)
T d1d3ya_         232 EQDIKRIKDGLKNDDFVRSFPEWQKALKQMLDMGVRAEQQSLAKYGLKYVVNTYLPEKIKDESTWL  297 (298)
T ss_dssp             HHHHHHHHHHHHHCHHHHTCHHHHHHHHHHHHHTEEBCGGGGGGGCTTHHHHTHHHHHHHCGGGCC
T ss_pred             hhHHHHHHHHhcChhhhhcCHHHHHHHHHHHHhCCeEEEehhhhcCCcccHHHHHHHHHHhcCCCC
Confidence            999999999999987643   799999999999999999999999999998 69999999765 97

>d2fcja1 c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Toprim domain
superfamily: Toprim domain
family: Toprim domain
domain: Hypothetical protein RBSTP2199
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=88.95  E-value=0.92  Score=34.54  Aligned_cols=69  Identities=19%  Similarity=0.204  Sum_probs=49.3

Q ss_pred             CccEEEEEehhhHHHHHHhccccCCCCEEEEEcCCCCChHHHHHHHHHHhhCCCCCEEEEecCChhhHHHHHHhh
Q 037694          181 DARYIIVVEKHAIFQRLTEDFVFNQIPSILITAKGYPDIATRFLLHRLNRAFPDLPILALVDWNPAGLAILCTFK  255 (355)
Q Consensus       181 ~a~~VLvVEK~avF~rL~~~~~~~~~~~IlITgkGyPd~~TR~fL~~L~~~~~~lpv~~l~D~DP~Gi~I~~~yk  255 (355)
                      +++.|+|||=+.--.+|.+-++.   |++.+++.|-........+++.   ...-.|+.++|.|--|-.+..-..
T Consensus         3 ~~~~viIvEG~~D~~~l~~~g~~---~vv~~~~gg~~~~~~~~~l~~~---~~~~~Iii~~D~D~aG~~~a~~l~   71 (114)
T d2fcja1           3 RVEKVIIVEGRSDKQKVAAVLNE---PVVIVCTNGTISDARLEELADE---LEGYDVYLLADADEAGEKLRRQFR   71 (114)
T ss_dssp             CCCEEEEESSHHHHHHHHHHBSS---CCEEEECCSCCCHHHHHHHHHH---TTTSEEEEECCSSHHHHHHHHHHH
T ss_pred             cCCEEEEEcCHHHHHHHHHcCCC---CeEEeCCCccccHHHHHHHHHH---hCCCcEEEEeCCChHHHHHHHHHH
Confidence            45789999988887888777644   6777777777655544444433   334479999999999998875543