Citrus Sinensis ID: 015510

---

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-------360-------370-------380-------390-------400-----
Protein Sequence
MSGSHADSTQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITPIPSQTDCNNTPS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccccccccccEEEcccccccccHHHHHHHHHHHHHHHHHccEEEcccccHHHHHHHHHHHHHHHHHHHHHHccEEEEEEEEEEccEEEEEEEEEEEccccccccccEEEccccccccccccHHHccccHHHHHHHHHHHHHHHccccccHHHHHHccccccccccHHHHHHHHccccccccHHHHHHHHHHHHHHccccccccEEEEEEcccccEEEEEEEEccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccEEEEcHHHHHHHHHHHHcHHHccccHHHHHHHHHHcccccccccccccccccccccccccHcccccccccccccccccHHHHHHcccccEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccEEEEEccHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEEEEccEEEEEEEEEEEcccccccccEEEEEEccccccccccHHHHcHHHHHHHHHHHHHHHHHcccccHHHHHHHccccccccccHHHHHHHHHccccHHcHHHHHHHHHHHHHcccccccEEEEEEEEcccccEEEEEEEEccHHHHHHHHHHHHHHHHcccccccccHHHHHcccccccHccccHHHHccccccccccccccccc
Coil and Loop (DISEMBL)
msgshadstqsqdvnsanvtpdipieIVSEEEMALIDAAlaaprccspssslsFASQLQRNARFIHSISFlskrsfsgrtesdiedlghlgmtQKRNIIAKSLLDRFrknralsvtdvtdTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEgltrelpilgFIKGVWMVGVIDeiqmpvketarnpilvdtktraqytlpaesqkrnGRLQLMCYKYMWDnlaadnfpsmqfydffslnsdcilSEEIIEktsnagfpaktLGDLVKYFRNMWNMLPASHNQLLLRYEFQkdqsllgeekfafdydlFNSQIEVCLEFWkgereasftpledrwkcrycqfesvcpavlkpeitpipsqtdcnntps
Flexible Loop (DISEMBL)
msgshadstqsqdvnsanvtPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIHSisflskrsfsgrTESDiedlghlgmtqkRNIIAKSLldrfrknralsvtdvtdtewCEKKMefnllfgskkvnKVMKVGRARhaelekevtekvkvrvrstediwavklfnsITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPvketarnpilvdtktraqytlpaesqkrngrLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIektsnagfpakTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCpavlkpeitpipsqtdcnntps
Low Complexity Region (SEG)
MSGSHADSTQSQDVNSANVTPDIPIEIVSEEEMALIDaalaaprccspssslsfasqlqrNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELekevtekvkvRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITPIPSQTDCNNTPS
Disordered region (IsUnstruct)
**********************IPIEIVSEEEMALIDAALAAPRCCS*********QLQRNARFIHSISFLS*************DLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTL*******NGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEI**************
Disordered Region (DISOPRED)
*************************EIVSEEEMA***********************************************************************RFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVK****NP***********************LQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILS**********GFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC**********************
Disordered Region (DISEMBL)
****************ANVTPDIPIEIVSEEEMALIDAALAAP************SQLQRNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITPIPS*********
Disordered Region (DISPRO)
*******************TPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQR****I*S*********************************KSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPE*****S*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSGSHADSTQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITPIPSQTDCNNTPS
Positional Conservation
no confident homologs detected

---

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	405	2.2.26 [Sep-21-2011]
Q9FKK6	413	Exonuclease V, chloroplas	yes	no	0.881	0.864	0.524	1e-103
A2VDX7	370	Exonuclease V OS=Bos taur	yes	no	0.698	0.764	0.294	2e-35
Q9CXP9	373	Exonuclease V OS=Mus musc	yes	no	0.681	0.739	0.309	3e-32
Q9H790	373	Exonuclease V OS=Homo sap	yes	no	0.698	0.758	0.298	4e-31
F1Q514	394	Exonuclease V OS=Danio re	yes	no	0.683	0.703	0.312	2e-30
Q9Y7L4	409	Probable exonuclease V, m	yes	no	0.716	0.709	0.276	5e-22
C4YLG6	611	Exonuclease V, mitochondr	N/A	no	0.145	0.096	0.360	2e-06
Q59ZZ6	628	Exonuclease V, mitochondr	N/A	no	0.145	0.093	0.360	2e-06
B9WLF5	624	Exonuclease V, mitochondr	yes	no	0.145	0.094	0.377	4e-06

>sp|Q9FKK6|EXO5_ARATH Exonuclease V, chloroplastic OS=Arabidopsis thaliana GN=At5g60370 PE=2 SV=1

 Score =  375 bits (964), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 201/383 (52%), Positives = 265/383 (69%), Gaps = 26/383 (6%)

Query: 8   STQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFA-SQLQRNA--RF 64
           S QS  V    V P+IPIEIVSEEEMA++DAALAA R   PS   S + S++      + 
Sbjct: 31  SPQSHHV----VFPEIPIEIVSEEEMAILDAALAASRSILPSVIRSVSPSRITAGGSPKT 86

Query: 65  IHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWC 124
           I SI+  SKR  S    SDIE+               S L RFR+N+AL VTD+T TEWC
Sbjct: 87  IRSITLFSKRKLSAC--SDIEE---------------SYLHRFRRNQALGVTDLTGTEWC 129

Query: 125 EKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVN 184
           EK+ME  L FG +KVNK MKVG+ARH +LE+EV +KV+V+V S ED WA+KL NSI GVN
Sbjct: 130 EKQMENVLCFGRRKVNKAMKVGQARHLQLEEEVVKKVRVKVESNEDKWALKLLNSIAGVN 189

Query: 185 QLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARN--PILVDTKTRAQYTLPAESQ 242
           Q LFEG TREL +LGF+ G W+VG+IDE++    E + +  PIL+DTKTR + TLPAE Q
Sbjct: 190 QFLFEGRTRELLLLGFVGGQWIVGIIDELRKAYAEESSDSGPILIDTKTRLRDTLPAEPQ 249

Query: 243 KRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGD 302
           +RNGRLQLM YK +WD +  + FP+  F+D+FSLN + +LS+++ +  +NAG  A+TL +
Sbjct: 250 RRNGRLQLMLYKLLWDTIVKEGFPTGPFFDYFSLNRNYVLSQDVRDHIANAGIKAQTLEE 309

Query: 303 LVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGERE 362
           +V+Y+ N + MLP ++NQLLL+YEFQKDQS++ E +F  D++   S+    +EFW+ ERE
Sbjct: 310 IVRYYENTFQMLPIANNQLLLKYEFQKDQSIIAEIRFNHDHEWVMSKYREVIEFWRNERE 369

Query: 363 ASFTPLEDRWKCRYCQFESVCPA 385
           A +TP E+RWKCRYCQF   CP 
Sbjct: 370 AGYTPEEERWKCRYCQFAKSCPG 392

Single-stranded DNA (ssDNA) bidirectional exonuclease. Has both 5'-3' and 3'-5' exonuclease activities with a strong preference for 5'-ends.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 1EC: .EC: -

>sp|A2VDX7|EXO5_BOVIN Exonuclease V OS=Bos taurus GN=EXO5 PE=2 SV=2

 Score =  150 bits (378), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 87/295 (29%), Positives = 147/295 (49%), Gaps = 12/295 (4%)

Query: 95  KRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFG---SKKVNKVMKVGRARHA 151
           KR +   S ++RF   + L VTD++   WCE++M +   F    + + + ++  G + H 
Sbjct: 61  KRRLDVSSPMERFHL-KYLYVTDLSTQNWCEQQMVYGKEFSGFLTPEKSAILDTGASIHL 119

Query: 152 ELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVID 211
             E EV + V + + S ED WAVK  N ++ +  L  EG  RE P+   ++GV +VGVID
Sbjct: 120 ARELEVHDLVSIPITSKEDAWAVKFLNILSMIPTLQSEGRIREFPVFAEVEGVLLVGVID 179

Query: 212 EIQMPVKETARNPI-LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQF 270
           E+      TA   + L + KTR    LP+++QK+    Q+  YKY++D +      +   
Sbjct: 180 ELHY----TASGELELTELKTRGNPVLPSDAQKKKDYFQVSLYKYIFDAMVQGKVTAASL 235

Query: 271 YDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVK--YFRNMWNMLPASHNQLLLRYEFQ 328
                L+ +  L   ++      G+  K+LGDL++  +     + LP   + L + Y  Q
Sbjct: 236 IHHTKLDPEKPLGPSVLRHAQQGGYSVKSLGDLIELVFLSLTLSDLPLI-DSLKIEYVHQ 294

Query: 329 KDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
              ++LG E  AF      S+++  + +W G RE     +E+ WKCR C +  +C
Sbjct: 295 GTATVLGTEMVAFAEKEVRSKVQHYMTYWMGHREPQGVDVEEAWKCRMCNYADIC 349

Probable single strand DNA specific 5' exonuclease mitochondrial DNA replication and recombination.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|Q9CXP9|EXO5_MOUSE Exonuclease V OS=Mus musculus GN=Exo5 PE=2 SV=1

 Score =  139 bits (351), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 89/288 (30%), Positives = 143/288 (49%), Gaps = 12/288 (4%)

Query: 102 SLLDRFRKNRALSVTDVTDTEWCEKKMEFNL-LFGSKKVNK--VMKVGRARHAELEKEVT 158
           S ++RF   + L VTD+    WCE +M +   L GS    K  V+  G + H   E E+ 
Sbjct: 71  SPMERFHL-KYLYVTDLCTQNWCELQMVYGKELPGSLTPEKAAVLDTGASIHLAKELELH 129

Query: 159 EKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVK 218
           + V V + + ED WAVK  N +  +  L  EG  RE P+ G ++G+++VGVIDE+     
Sbjct: 130 DLVTVPIATKEDAWAVKFLNILAMIPALQSEGRVREFPVFGEVEGIFLVGVIDELHY--- 186

Query: 219 ETARNPI-LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLN 277
            T++  + L + KTR +  LP  +QK+    Q+  YKY++D +               L 
Sbjct: 187 -TSKGELELAELKTRRRPVLPLPAQKKKDYFQVSLYKYIFDAMVQGKVTPASLIHHTKLC 245

Query: 278 SDCILSEEIIEKTSNAGFPAKTLGDLVK--YFRNMWNMLPASHNQLLLRYEFQKDQSLLG 335
            D  L   ++      G   K+LGDL++  +     + LPA  + L L Y  Q+  ++LG
Sbjct: 246 LDKPLGPSVLRHARQGGVSVKSLGDLMELVFLSLTLSDLPAI-DTLKLEYIHQETATILG 304

Query: 336 EEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
            E  AF+     S+++  + +W G R+     +E+ WKCR C +  +C
Sbjct: 305 TEIVAFEEKEVKSKVQHYVAYWMGHRDPQGVDVEEAWKCRTCDYVDIC 352

Probable single strand DNA specific 5' exonuclease mitochondrial DNA replication and recombination.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|Q9H790|EXO5_HUMAN Exonuclease V OS=Homo sapiens GN=EXO5 PE=1 SV=1

 Score =  135 bits (341), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 88/295 (29%), Positives = 142/295 (48%), Gaps = 12/295 (4%)

Query: 95  KRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNL---LFGSKKVNKVMKVGRARHA 151
           KR +   S ++RF   + L VTD+    WCE +  +      F + +   V+  G + H 
Sbjct: 64  KRGLDILSPMERFHL-KYLYVTDLATQNWCELQTAYGKELPGFLAPEKAAVLDTGASIHL 122

Query: 152 ELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVID 211
             E E+ + V V V + ED WA+K  N +  +  L  EG  RE P+ G  +GV +VGVID
Sbjct: 123 ARELELHDLVTVPVTTKEDAWAIKFLNILLLIPTLQSEGHIREFPVFGEGEGVLLVGVID 182

Query: 212 EIQMPVKETARNPI-LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQF 270
           E+      TA+  + L + KTR +  LP E+QK+    Q+  YKY++D +          
Sbjct: 183 ELHY----TAKGELELAELKTRRRPMLPLEAQKKKDCFQVSLYKYIFDAMVQGKVTPASL 238

Query: 271 YDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVK--YFRNMWNMLPASHNQLLLRYEFQ 328
                L  +  L   ++      GF  K+LGDL++  +     + LP   + L + Y  Q
Sbjct: 239 IHHTKLCLEKPLGPSVLRHAQQGGFSVKSLGDLMELVFLSLTLSDLPVI-DILKIEYIHQ 297

Query: 329 KDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
           +  ++LG E  AF      ++++  + +W G RE     +E+ WKCR C +  +C
Sbjct: 298 ETATVLGTEIVAFKEKEVRAKVQHYMAYWMGHREPQGVDVEEAWKCRTCTYADIC 352

Probable single strand DNA specific 5' exonuclease mitochondrial DNA replication and recombination.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|F1Q514|EXO5_DANRE Exonuclease V OS=Danio rerio GN=exo5 PE=3 SV=1

 Score =  134 bits (336), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 90/288 (31%), Positives = 139/288 (48%), Gaps = 11/288 (3%)

Query: 102 SLLDRFRKNRALSVTDVTDTEWCEKKMEFNLL---FGSKKVNKV-MKVGRARHAELEKEV 157
           S + RFRK   LSVT + D  WCE K  +NLL      K++ +  +++G+  H   E E+
Sbjct: 91  SPMQRFRKQH-LSVTLLCDQTWCEMKSVYNLLKPHIKRKEMQRTEVQIGQEIHLSRELEI 149

Query: 158 TEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPV 217
            + V V +R+ ED  AVKL N +  +  L      RE P+ G  +GV+++GVIDE+    
Sbjct: 150 QDVVPVDIRTREDGEAVKLLNMLHMIPLLEAGQRVREFPVFGVQEGVFIMGVIDELMYNQ 209

Query: 218 KETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLN 277
           K      +L + KTR Q +LP+ +Q +    Q+  YK ++D L          +D   L 
Sbjct: 210 KGEL---VLNELKTRRQNSLPSSAQDKVNCFQVGLYKLLFDGLVRGEMKKNHIFDHLKLR 266

Query: 278 SDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNM--LPASHNQLLLRYEFQKDQSLLG 335
           S  IL   +     N G  A+T  +LV+      +   LP   + L + Y  Q     +G
Sbjct: 267 SAQILGAGVQAHAKNLGVHARTFEELVETLLITVSCSDLPCI-DLLQIEYFHQGSNGPIG 325

Query: 336 EEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
                FD      +++  L +W G+RE     +E+ WKCR C +E +C
Sbjct: 326 TRVAPFDEAQIRGELQAYLSYWTGQREPKGVDIEEAWKCRSCLYEEIC 373

Single-stranded DNA (ssDNA) bidirectional exonuclease involved in DNA repair. Probably involved in DNA repair following ultraviolet (UV) irradiation and interstrand cross-links (ICLs) damage. Has both 5'-3' and 3'-5' exonuclease activities with a strong preference for 5'-ends.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|Q9Y7L4|EXO5_SCHPO Probable exonuclease V, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=exo5 PE=3 SV=1

 Score =  105 bits (263), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 97/351 (27%), Positives = 148/351 (42%), Gaps = 61/351 (17%)

Query: 102 SLLDRFRKNRA-LSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEK 160
           SL   FRK++  L+VTD+    WCE + E+ LL   KK    M+ G   H  LE E +  
Sbjct: 63  SLFQLFRKHKGYLNVTDLVLPLWCEVQHEYYLLRRIKKKTPKMERGIKLHQILEYETSPP 122

Query: 161 VKVRV---RSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQM-- 215
            + RV    S E+ WA++L   + G+  L   G+TRE PI G+ K   + G+IDEI +  
Sbjct: 123 SERRVLDRTSKEEPWALRLLRQLEGIMLLQKNGITREFPIWGYYKESSIFGIIDEISLNN 182

Query: 216 PVKETARNPI------------LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAAD 263
           P K    + I             VD KTR     P  SQ  + ++QLM Y +++ N    
Sbjct: 183 PSKSNFNSDIRNYFNFKMYDLSFVDNKTRFSSRKPGASQILSSKVQLMYYVHLFLNY--- 239

Query: 264 NFPSM---------------------------QFYDFFSLNSDCILSEEIIEKT--SNAG 294
            FPS+                            F    SL+    L  + +E++  S   
Sbjct: 240 -FPSLGEKQQSIFRDISPTYSNRLHSQSHWWNMFLSQLSLDGTKDLGPKFLEQSILSIPD 298

Query: 295 FPAKTLGDLVKYFRNMWNMLPASHNQLLLR---------YEFQKDQSLLGEEKFAFDYDL 345
            P             ++ ++ AS  +L LR         Y   K   ++ ++KF+F   L
Sbjct: 299 IPEDVFAG-HNSLNGLYALVFASAKKLHLRLTDDNLTIAYRNDKTGEVVYKDKFSFSNKL 357

Query: 346 FNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITPIPS 396
             +      +FW   RE    P E+ +KCR C+F+  C  + K +  P+ S
Sbjct: 358 LEASYTKAYQFWHNLREPEGVPAEEVYKCRSCEFQKECWWLKKKQYYPLSS 408

Single strand DNA specific 5' exonuclease involved in mitochondrial DNA replication and recombination. Releases dinucleotides as main products of catalysis. Has the capacity to slide across 5'double-stranded DNA or 5'RNA sequences and resumes cutting two nucleotides downstream of the double-stranded-to-single-stranded junction or RNA-to-DNA junction, respectively.

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

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|C4YLG6|EXO5_CANAW Exonuclease V, mitochondrial OS=Candida albicans (strain WO-1) GN=EXO5 PE=3 SV=1

 Score = 54.3 bits (129), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 36/61 (59%), Gaps = 2/61 (3%)

Query: 323 LRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESV 382
           + Y + K   LL E+ + +++  F +++E   +FW GERE    P ED  +C YC+F+S 
Sbjct: 520 VEYRYNKTSELLSEKVYDYNFSEFQAEVESASKFWNGEREV--IPTEDLSRCSYCEFQSK 577

Query: 383 C 383
           C
Sbjct: 578 C 578

Single strand DNA specific 5'exonuclease involved in mitochondrial DNA replication and recombination. Releases dinucleotides as main products of catalysis. Has the capacity to slide across 5'double-stranded DNA or 5'RNA sequences and resumes cutting two nucleotides downstream of the double-stranded-to-single-stranded junction or RNA-to-DNA junction, respectively.

Candida albicans (strain WO-1) (taxid: 294748)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|Q59ZZ6|EXO5_CANAL Exonuclease V, mitochondrial OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=DEM1 PE=3 SV=1

 Score = 53.9 bits (128), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/61 (36%), Positives = 36/61 (59%), Gaps = 2/61 (3%)

Query: 323 LRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESV 382
           + Y + K   LL E+ + +++  F +++E   +FW GERE    P ED  +C YC+F+S 
Sbjct: 537 VEYRYNKTSELLSEKVYDYNFSEFQAEVESASKFWNGEREV--IPTEDLSRCSYCEFQSK 594

Query: 383 C 383
           C
Sbjct: 595 C 595

Single strand DNA specific 5' exonuclease involved in mitochondrial DNA replication and recombination. Releases dinucleotides as main products of catalysis. Has the capacity to slide across 5'double-stranded DNA or 5'RNA sequences and resumes cutting two nucleotides downstream of the double-stranded-to-single-stranded junction or RNA-to-DNA junction, respectively.

Candida albicans (strain SC5314 / ATCC MYA-2876) (taxid: 237561)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

>sp|B9WLF5|EXO5_CANDC Exonuclease V, mitochondrial OS=Candida dubliniensis (strain CD36 / ATCC MYA-646 / CBS 7987 / NCPF 3949 / NRRL Y-17841) GN=EXO5 PE=3 SV=1

 Score = 53.1 bits (126), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 2/61 (3%)

Query: 323 LRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESV 382
           + Y   K   LL E  + +D+  F  ++E   +FW GEREA   P ED  +C +C+F+S 
Sbjct: 533 VEYRLNKTSQLLSENVYEYDFSEFQVEVESASKFWNGEREA--VPTEDLSRCSFCEFQSK 590

Query: 383 C 383
           C
Sbjct: 591 C 591

Single strand DNA specific 5'exonuclease involved in mitochondrial DNA replication and recombination. Releases dinucleotides as main products of catalysis. Has the capacity to slide across 5'double-stranded DNA or 5'RNA sequences and resumes cutting two nucleotides downstream of the double-stranded-to-single-stranded junction or RNA-to-DNA junction, respectively.

Candida dubliniensis (strain CD36 / ATCC MYA-646 / CBS 7987 / NCPF 3949 / NRRL Y-17841) (taxid: 573826)

EC: 3

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: .

EC: -

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	405
147780726	402	hypothetical protein VITISV_002856 [Viti	0.938	0.945	0.593	1e-126
225435228	442	PREDICTED: probable exonuclease V-like [	0.958	0.877	0.585	1e-124
297746215	379	unnamed protein product [Vitis vinifera]	0.906	0.968	0.590	1e-119
255570799	412	conserved hypothetical protein [Ricinus	0.928	0.912	0.587	1e-119
357472385	407	Defects in morphology protein-like prote	0.920	0.916	0.561	1e-114
356539114	388	PREDICTED: probable exonuclease V-like [	0.903	0.943	0.542	1e-114
449508670	392	PREDICTED: LOW QUALITY PROTEIN: probable	0.918	0.948	0.552	1e-104
449463661	392	PREDICTED: probable exonuclease V-like [	0.948	0.979	0.539	1e-103
15239302	413	uncharacterized protein [Arabidopsis tha	0.881	0.864	0.524	1e-101
51969030	413	unknown protein [Arabidopsis thaliana] g	0.881	0.864	0.522	1e-101

>gi|147780726|emb|CAN60322.1| hypothetical protein VITISV_002856 [Vitis vinifera]

 Score =  456 bits (1173), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 235/396 (59%), Positives = 293/396 (73%), Gaps = 16/396 (4%)

Query: 13  DVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQ------------LQR 60
           + +SA   PBIP+EIV++EEMALI+AAL A R    SS++   S             L R
Sbjct: 5   NADSAINVPBIPVEIVTDEEMALIEAALTAARSSLSSSTIPAXSFTAAASSSSFSPLLHR 64

Query: 61  NARFIHSISFLSKRSFSGRTES----DIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVT 116
           NAR I SI+ LSKR  S  T++    DIED G L  TQK+  + +SLL RFR+ + LSVT
Sbjct: 65  NARSIGSIARLSKRRLSXCTDTSPIRDIEDSGVLRSTQKKIGVRESLLHRFRRKKGLSVT 124

Query: 117 DVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKL 176
           D+T TEWCEK+MEF LL G  ++ K MK G  RHA+LE+EV +KVKVRV + ED+ A+K 
Sbjct: 125 DITGTEWCEKQMEFLLLLGKPEITKAMKAGIVRHAKLEEEVVKKVKVRVGTLEDVLALKF 184

Query: 177 FNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYT 236
            N I G NQLLFEGLTRELP++GF++GVWMVGVIDEI+MP  E  RNPILV+TKTRAQ  
Sbjct: 185 INFIVGANQLLFEGLTRELPLIGFVEGVWMVGVIDEIRMPETEANRNPILVETKTRAQAR 244

Query: 237 LPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFP 296
            PAE Q+RNGRLQLMCYK +WD+LAA++FPS QFYDFF+LN   ILSEEI E T N+GFP
Sbjct: 245 SPAEPQQRNGRLQLMCYKRLWDSLAANSFPSRQFYDFFALNPHYILSEEIRENTXNSGFP 304

Query: 297 AKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEF 356
           A+TL DL++YF NM  MLP + +QLLLRYE+Q+D SLLGE++F +D D  N QI  CLEF
Sbjct: 305 AETLDDLLRYFSNMCCMLPPADDQLLLRYEYQEDHSLLGEDRFMYDSDWANRQIRCCLEF 364

Query: 357 WKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEIT 392
           W GEREA++TP+E+RWKCR+C+F SVCPA +  + T
Sbjct: 365 WLGEREANYTPVEERWKCRHCKFSSVCPAKINADCT 400

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225435228|ref|XP_002284918.1| PREDICTED: probable exonuclease V-like [Vitis vinifera]

 Score =  452 bits (1162), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 237/405 (58%), Positives = 297/405 (73%), Gaps = 17/405 (4%)

Query: 4   SHADSTQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQ------ 57
           + A+ T+S   ++ NV PDIP+EIV++EEMALI+AAL A R    SS++   S       
Sbjct: 37  TQAEMTESNADSAINV-PDIPVEIVTDEEMALIEAALTAARSSLSSSTIPAISFTAAASS 95

Query: 58  ------LQRNARFIHSISFLSKRSFSGRTES----DIEDLGHLGMTQKRNIIAKSLLDRF 107
                 L RNAR I SI+ LSKR  S  T++    DIED G L  TQK+  + +SLL RF
Sbjct: 96  SSFSPLLHRNARSIGSIARLSKRRLSDCTDTSPIRDIEDSGVLRSTQKKIGVRESLLHRF 155

Query: 108 RKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRS 167
           R+ + LSVTD+T TEWCEK+MEF LL    ++ K MK G  RHA+LE+EV +KVKVRV +
Sbjct: 156 RRKKGLSVTDITGTEWCEKQMEFLLLLRKPEITKAMKAGIVRHAKLEEEVVKKVKVRVGT 215

Query: 168 TEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILV 227
            ED+ A+K  N I G NQLLFEGLTRELP++GF++GVWMVGVIDEI+MP  E  RNPILV
Sbjct: 216 LEDVLALKFINFIVGANQLLFEGLTRELPLIGFVEGVWMVGVIDEIRMPETEANRNPILV 275

Query: 228 DTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEII 287
           +TKTRAQ   PAE Q+RNGRLQLMCYK +WD+LAA++FPS QFYDFF+LN   ILSEEI 
Sbjct: 276 ETKTRAQARSPAEPQQRNGRLQLMCYKRLWDSLAANSFPSRQFYDFFALNPHYILSEEIR 335

Query: 288 EKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFN 347
           E T N+GFPA+TL DL++YF NM  MLP + +QLLLRYE+Q+D SLLGE++F +D D  N
Sbjct: 336 ENTVNSGFPAETLDDLLRYFSNMCCMLPPADDQLLLRYEYQEDHSLLGEDRFMYDSDWAN 395

Query: 348 SQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEIT 392
            QI  CLEFW GEREA++TP+E+ WKCR+C+F SVCPA +  + T
Sbjct: 396 RQIRCCLEFWLGEREANYTPVEEHWKCRHCKFSSVCPAKINADCT 440

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297746215|emb|CBI16271.3| unnamed protein product [Vitis vinifera]

 Score =  436 bits (1121), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 228/386 (59%), Positives = 286/386 (74%), Gaps = 19/386 (4%)

Query: 13  DVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIHSISFLS 72
           + +SA   PDIP+EIV++EEMALI+AAL A R     SSLS ++        I +ISF +
Sbjct: 5   NADSAINVPDIPVEIVTDEEMALIEAALTAAR-----SSLSSST--------IPAISFTA 51

Query: 73  --KRSFSGRTES----DIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEK 126
               S S  T++    DIED G L  TQK+  + +SLL RFR+ + LSVTD+T TEWCEK
Sbjct: 52  AASSSLSDCTDTSPIRDIEDSGVLRSTQKKIGVRESLLHRFRRKKGLSVTDITGTEWCEK 111

Query: 127 KMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQL 186
           +MEF LL    ++ K MK G  RHA+LE+EV +KVKVRV + ED+ A+K  N I G NQL
Sbjct: 112 QMEFLLLLRKPEITKAMKAGIVRHAKLEEEVVKKVKVRVGTLEDVLALKFINFIVGANQL 171

Query: 187 LFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNG 246
           LFEGLTRELP++GF++GVWMVGVIDEI+MP  E  RNPILV+TKTRAQ   PAE Q+RNG
Sbjct: 172 LFEGLTRELPLIGFVEGVWMVGVIDEIRMPETEANRNPILVETKTRAQARSPAEPQQRNG 231

Query: 247 RLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKY 306
           RLQLMCYK +WD+LAA++FPS QFYDFF+LN   ILSEEI E T N+GFPA+TL DL++Y
Sbjct: 232 RLQLMCYKRLWDSLAANSFPSRQFYDFFALNPHYILSEEIRENTVNSGFPAETLDDLLRY 291

Query: 307 FRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFT 366
           F NM  MLP + +QLLLRYE+Q+D SLLGE++F +D D  N QI  CLEFW GEREA++T
Sbjct: 292 FSNMCCMLPPADDQLLLRYEYQEDHSLLGEDRFMYDSDWANRQIRCCLEFWLGEREANYT 351

Query: 367 PLEDRWKCRYCQFESVCPAVLKPEIT 392
           P+E+ WKCR+C+F SVCPA +  + T
Sbjct: 352 PVEEHWKCRHCKFSSVCPAKINADCT 377

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570799|ref|XP_002526352.1| conserved hypothetical protein [Ricinus communis] gi|223534311|gb|EEF36023.1| conserved hypothetical protein [Ricinus communis]

 Score =  433 bits (1113), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 228/388 (58%), Positives = 286/388 (73%), Gaps = 12/388 (3%)

Query: 6   ADSTQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSL------SFASQLQ 59
            ++  +  ++S N   +IPIEIVSEEEM  I+AALAA R C  SSS+      S +S  Q
Sbjct: 9   GNNVTTATMSSGNSISNIPIEIVSEEEMGFIEAALAATRPCFSSSSIPAICSPSRSSLFQ 68

Query: 60  RNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQ-KRNIIA-KSLLDRFRKNRALSVTD 117
            + R I +I+  SK+   G   SDIEDLG    TQ K+N +A +S L +FRK   LSVTD
Sbjct: 69  NSVRSIQTITSFSKKRLIG---SDIEDLGDFKSTQLKKNRVADQSFLYKFRKRTGLSVTD 125

Query: 118 VTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLF 177
           +T TEWCEK+MEF LLFG +K++K MK GR RH +LEKEV +KVKV + S ED WA+K  
Sbjct: 126 ITSTEWCEKQMEFVLLFGKRKMSKAMKAGRDRHVKLEKEVVKKVKVSIESVEDAWALKFL 185

Query: 178 NSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTL 237
           N ITG NQLLFEGLTRELP++GF++GVW+VG++DEI+M ++    NPILVDTKTRA+ TL
Sbjct: 186 NFITGANQLLFEGLTRELPLVGFLEGVWVVGIVDEIRM-LEGKNGNPILVDTKTRARDTL 244

Query: 238 PAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPA 297
           PAE Q+RNGRLQLMCYK++WDNL AD FPS +F+DFFSLN   ILS+EI E T+ AG  A
Sbjct: 245 PAEPQRRNGRLQLMCYKHLWDNLVADKFPSKEFFDFFSLNPHYILSKEIRENTAKAGISA 304

Query: 298 KTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFW 357
           KTL ++V Y+RN   ML  + N+++LRYE QKD S+LGE++FA+D D   SQI  CLEFW
Sbjct: 305 KTLDEIVGYYRNTCKMLLPADNEMILRYELQKDNSVLGEDQFAYDPDWLESQIHDCLEFW 364

Query: 358 KGEREASFTPLEDRWKCRYCQFESVCPA 385
            GEREASFTP E+RWKCR+CQF S+CP 
Sbjct: 365 FGEREASFTPEEERWKCRFCQFASMCPT 392

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357472385|ref|XP_003606477.1| Defects in morphology protein-like protein [Medicago truncatula] gi|357472389|ref|XP_003606479.1| Defects in morphology protein-like protein [Medicago truncatula] gi|355507532|gb|AES88674.1| Defects in morphology protein-like protein [Medicago truncatula] gi|355507534|gb|AES88676.1| Defects in morphology protein-like protein [Medicago truncatula]

 Score =  419 bits (1078), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 216/385 (56%), Positives = 275/385 (71%), Gaps = 12/385 (3%)

Query: 13  DVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQ-------LQRNARFI 65
           + +S+N   +IPIEIVSEEEMA I+AA A+    S SS LS  S        L  NA  I
Sbjct: 3   ETSSSNNVNNIPIEIVSEEEMAFIEAAYASVSSSSSSSILSRCSSSSSPTRLLHNNAISI 62

Query: 66  HSISFLSKRSFSGRTE-----SDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTD 120
           +SI+ +SKR  S  +       DIED      +QK+  I+ S L RFRK RALSVTD+T 
Sbjct: 63  NSITLVSKRRLSSSSSSSSCAGDIEDTVVNSSSQKKPNISDSFLRRFRKKRALSVTDLTS 122

Query: 121 TEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSI 180
           TEWC K+MEF LL G +KVN+ MK G ARHA+LE EV  +++V+V+S ED  A+K  N I
Sbjct: 123 TEWCPKQMEFTLLLGGRKVNQFMKAGIARHAKLEAEVITRMEVKVQSQEDRMALKFLNFI 182

Query: 181 TGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE 240
            GVNQLLFEGLTRELPI+GF + +WMVG+IDE++MP+ E   NPIL+DTKTRA+ TLPAE
Sbjct: 183 AGVNQLLFEGLTRELPIIGFAEDIWMVGIIDEVRMPLTENDHNPILIDTKTRARDTLPAE 242

Query: 241 SQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTL 300
            Q+RNGRLQLMCYKYMWDNL ADNFPS  F+ +F LN   IL E++   ++++GF A TL
Sbjct: 243 PQRRNGRLQLMCYKYMWDNLVADNFPSKDFFTYFGLNPQSILCEDLRVLSADSGFSATTL 302

Query: 301 GDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGE 360
            D+V+Y+RN + ML  +++QLLLRYE+QKD SLL E+KFA+D     +QI  C+EFW GE
Sbjct: 303 DDVVRYYRNTYMMLSPANDQLLLRYEYQKDHSLLCEDKFAYDAVWLKNQIRSCIEFWLGE 362

Query: 361 REASFTPLEDRWKCRYCQFESVCPA 385
           REA++   E+RWKCR+CQ+  VCPA
Sbjct: 363 REAAYVHEEERWKCRFCQYAPVCPA 387

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356539114|ref|XP_003538045.1| PREDICTED: probable exonuclease V-like [Glycine max]

 Score =  419 bits (1078), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 209/385 (54%), Positives = 275/385 (71%), Gaps = 19/385 (4%)

Query: 23  IPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIH------SISFLSKRSF 76
           IPIEI+S++EMALI+AA A       +S+ +F+S    ++  +       SI+ LSKR  
Sbjct: 14  IPIEIISDDEMALIEAAFAF------ASTRTFSSLRSSSSSKLPLCTNALSITPLSKRKL 67

Query: 77  SGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGS 136
           S    SDIEDL      +K++ ++ S L RFR  R LSVTD+T TEWC K+MEF+LL G 
Sbjct: 68  S----SDIEDLP---TCKKKHTLSDSFLHRFRNKRGLSVTDLTSTEWCPKQMEFSLLLGG 120

Query: 137 KKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELP 196
           +KVN+ M+ G ARHA+LE+EV ++V+V+V+S ED WA+K  N I G NQLLFEGLTRELP
Sbjct: 121 RKVNEAMRAGIARHAKLEQEVIQRVEVKVKSQEDYWALKFLNFIAGANQLLFEGLTRELP 180

Query: 197 ILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYM 256
           ++GF + +WMVGVIDEI+MP+ E   NPIL+DTKTR++ TLPAE Q+RNGRLQLMCYKY+
Sbjct: 181 VIGFAEDIWMVGVIDEIRMPLTENDHNPILIDTKTRSRDTLPAEPQRRNGRLQLMCYKYL 240

Query: 257 WDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPA 316
           WDNL AD+FPS +F+ +F LN    L E++    +++GF A TL D V+Y+RN   ML  
Sbjct: 241 WDNLVADDFPSEKFFTYFGLNPQNNLCEDLKVIGADSGFSASTLDDAVRYYRNTCRMLAP 300

Query: 317 SHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRY 376
           +H+QLLLRYE+QKD SLLGE KFA+D D   +Q+  CLEFW GE+EA++TP E+RWKC+Y
Sbjct: 301 AHDQLLLRYEYQKDHSLLGEVKFAYDRDWLKNQLRSCLEFWLGEQEATYTPEEERWKCQY 360

Query: 377 CQFESVCPAVLKPEITPIPSQTDCN 401
           CQF  VCPA    + T  P +   N
Sbjct: 361 CQFARVCPAYTNSKGTESPKRNYSN 385

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449508670|ref|XP_004163378.1| PREDICTED: LOW QUALITY PROTEIN: probable exonuclease V-like [Cucumis sativus]

 Score =  385 bits (990), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 209/378 (55%), Positives = 274/378 (72%), Gaps = 6/378 (1%)

Query: 13  DVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQR-----NARFIHS 67
           D N+    P+IP+EIVS+EEMALI+AALAA    S SSS    S         N R IHS
Sbjct: 14  DDNTHEGFPNIPVEIVSDEEMALIEAALAAAVTTSRSSSSVIHSTSSSSHSLFNTRSIHS 73

Query: 68  ISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKK 127
           I+ LSKR     T+ DIEDLG + +TQK+  + +SLL RF++N+ L+VTD+T  EWCEK+
Sbjct: 74  ITLLSKRGIHS-TQPDIEDLGKIPITQKKIKVNESLLQRFKRNKPLAVTDITRMEWCEKQ 132

Query: 128 MEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLL 187
           MEF+LL G +K  K M+ G ARHA LE EV +KVKV+V+S EDIWA+KL N I GV+QL+
Sbjct: 133 MEFSLLSGVRKXTKAMEAGIARHAMLEAEVVKKVKVQVQSIEDIWALKLLNFIVGVHQLV 192

Query: 188 FEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGR 247
            EGLTRELP++G ++GVW+VG+IDEIQM   +T + P+L+DTKTR + T+PA  Q+RNG+
Sbjct: 193 LEGLTRELPVMGLVEGVWIVGIIDEIQMLEIDTTKIPMLIDTKTRVRDTIPAVPQRRNGK 252

Query: 248 LQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYF 307
           LQLM YK++ DNL +D     QF+DFFSLN    LSEEI + T++ GF AKTL D+V+Y+
Sbjct: 253 LQLMFYKFLLDNLISDGLSIRQFFDFFSLNPHSTLSEEISDTTTSIGFTAKTLDDVVRYY 312

Query: 308 RNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTP 367
            N  +MLP +HNQLL+RYE QKDQS++ E+KFA+D+    +Q+E  L+ W G+RE   TP
Sbjct: 313 INCCSMLPPTHNQLLIRYESQKDQSIIVEDKFAYDHGWLKTQLETQLQVWHGQREPECTP 372

Query: 368 LEDRWKCRYCQFESVCPA 385
            E+RWKCR+CQF S CP 
Sbjct: 373 QEERWKCRHCQFASDCPT 390

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463661|ref|XP_004149550.1| PREDICTED: probable exonuclease V-like [Cucumis sativus]

 Score =  382 bits (981), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 211/391 (53%), Positives = 278/391 (71%), Gaps = 7/391 (1%)

Query: 1   MSGSHADSTQ-SQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQ 59
           M+ SH+       D N+    P+IP+EIVS+EEMALI+AALAA    S SSS    S   
Sbjct: 1   MADSHSGLPPFKDDDNTHEGFPNIPVEIVSDEEMALIEAALAAAVTTSRSSSSVIHSTSS 60

Query: 60  R-----NARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALS 114
                 N R IHSI+ LSKR     T+ DIEDLG + +TQK+  + +SLL RF++N+ L+
Sbjct: 61  SSHSLFNTRSIHSITLLSKRGIHS-TQPDIEDLGKIPITQKKIKVNESLLQRFKRNKPLA 119

Query: 115 VTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAV 174
           VTD+T  EWCEK+MEF+LL G +K  K M+ G ARHA LE EV +KVKV+V+S EDIWA+
Sbjct: 120 VTDITRMEWCEKQMEFSLLSGVRKKTKAMEAGIARHAMLEAEVVKKVKVQVQSIEDIWAL 179

Query: 175 KLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQ 234
           KL N I GV+QL+ EGLTRELP++G ++GVW+VG+IDEIQM   +T + P+L+DTKTR +
Sbjct: 180 KLLNFIVGVHQLVLEGLTRELPVMGLVEGVWIVGIIDEIQMLEIDTTKIPMLIDTKTRVR 239

Query: 235 YTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAG 294
            T+PA  Q+RNG+LQLM YK++ DNL +D     QF+DFFSLN    LSEEI + T++ G
Sbjct: 240 DTIPAVPQRRNGKLQLMFYKFLLDNLISDGLSIRQFFDFFSLNPHSTLSEEISDTTTSIG 299

Query: 295 FPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCL 354
           F AKTL D+V+Y+ N  +MLP +HNQLL+RYE QKDQS++ E+KFA+D+    +Q+E  L
Sbjct: 300 FTAKTLDDVVRYYINCCSMLPPTHNQLLIRYESQKDQSIIVEDKFAYDHGWLKTQLETQL 359

Query: 355 EFWKGEREASFTPLEDRWKCRYCQFESVCPA 385
           + W G+RE   TP E+RWKCR+CQF   CP 
Sbjct: 360 QVWHGQREPECTPQEERWKCRHCQFAFDCPT 390

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15239302|ref|NP_200845.1| uncharacterized protein [Arabidopsis thaliana] gi|9757741|dbj|BAB08222.1| unnamed protein product [Arabidopsis thaliana] gi|18175767|gb|AAL59924.1| unknown protein [Arabidopsis thaliana] gi|23296592|gb|AAN13127.1| unknown protein [Arabidopsis thaliana] gi|332009933|gb|AED97316.1| uncharacterized protein [Arabidopsis thaliana]

 Score =  375 bits (964), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 201/383 (52%), Positives = 265/383 (69%), Gaps = 26/383 (6%)

Query: 8   STQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFA-SQLQRNA--RF 64
           S QS  V    V P+IPIEIVSEEEMA++DAALAA R   PS   S + S++      + 
Sbjct: 31  SPQSHHV----VFPEIPIEIVSEEEMAILDAALAASRSILPSVIRSVSPSRITAGGSPKT 86

Query: 65  IHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWC 124
           I SI+  SKR  S    SDIE+               S L RFR+N+AL VTD+T TEWC
Sbjct: 87  IRSITLFSKRKLSAC--SDIEE---------------SYLHRFRRNQALGVTDLTGTEWC 129

Query: 125 EKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVN 184
           EK+ME  L FG +KVNK MKVG+ARH +LE+EV +KV+V+V S ED WA+KL NSI GVN
Sbjct: 130 EKQMENVLCFGRRKVNKAMKVGQARHLQLEEEVVKKVRVKVESNEDKWALKLLNSIAGVN 189

Query: 185 QLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARN--PILVDTKTRAQYTLPAESQ 242
           Q LFEG TREL +LGF+ G W+VG+IDE++    E + +  PIL+DTKTR + TLPAE Q
Sbjct: 190 QFLFEGRTRELLLLGFVGGQWIVGIIDELRKAYAEESSDSGPILIDTKTRLRDTLPAEPQ 249

Query: 243 KRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGD 302
           +RNGRLQLM YK +WD +  + FP+  F+D+FSLN + +LS+++ +  +NAG  A+TL +
Sbjct: 250 RRNGRLQLMLYKLLWDTIVKEGFPTGPFFDYFSLNRNYVLSQDVRDHIANAGIKAQTLEE 309

Query: 303 LVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGERE 362
           +V+Y+ N + MLP ++NQLLL+YEFQKDQS++ E +F  D++   S+    +EFW+ ERE
Sbjct: 310 IVRYYENTFQMLPIANNQLLLKYEFQKDQSIIAEIRFNHDHEWVMSKYREVIEFWRNERE 369

Query: 363 ASFTPLEDRWKCRYCQFESVCPA 385
           A +TP E+RWKCRYCQF   CP 
Sbjct: 370 AGYTPEEERWKCRYCQFAKSCPG 392

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51969030|dbj|BAD43207.1| unknown protein [Arabidopsis thaliana] gi|51971993|dbj|BAD44661.1| unknown protein [Arabidopsis thaliana]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 200/383 (52%), Positives = 264/383 (68%), Gaps = 26/383 (6%)

Query: 8   STQSQDVNSANVTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFA-SQLQRNA--RF 64
           S QS  V    V P+IPIEIVSEEEMA++DAALAA R   PS   S + S++      + 
Sbjct: 31  SPQSHHV----VFPEIPIEIVSEEEMAILDAALAASRSILPSVIRSVSPSRITAGGSPKT 86

Query: 65  IHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWC 124
           I SI+  SKR  S    SDIE+               S L RFR+N+AL VTD+T TEWC
Sbjct: 87  IRSITLFSKRKLSAC--SDIEE---------------SYLHRFRRNQALGVTDLTGTEWC 129

Query: 125 EKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVN 184
           EK+ME  L FG +KVNK MKVG+ARH +LE+EV +KV+V+V S ED WA+KL NSI GVN
Sbjct: 130 EKQMENVLCFGRRKVNKAMKVGQARHLQLEEEVVKKVRVKVESNEDKWALKLLNSIAGVN 189

Query: 185 QLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARN--PILVDTKTRAQYTLPAESQ 242
           Q LFEG TREL +LGF+ G W+VG+IDE++    E + +  PIL+DTKTR + TLPAE Q
Sbjct: 190 QFLFEGRTRELLLLGFVGGQWIVGIIDELRKAYAEESSDSGPILIDTKTRLRDTLPAEPQ 249

Query: 243 KRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGD 302
           +RNGRLQLM YK +WD +  + FP+  F+D+FSLN + +LS+++ +  +NAG  A+TL +
Sbjct: 250 RRNGRLQLMLYKLLWDTIVKEGFPTGPFFDYFSLNRNYVLSQDVRDHIANAGIKAQTLEE 309

Query: 303 LVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGERE 362
           + +Y+ N + MLP ++NQLLL+YEFQKDQS++ E +F  D++   S+    +EFW+ ERE
Sbjct: 310 IGRYYENTFQMLPIANNQLLLKYEFQKDQSIIAEIRFNHDHEWVMSKYREVIEFWRNERE 369

Query: 363 ASFTPLEDRWKCRYCQFESVCPA 385
           A +TP E+RWKCRYCQF   CP 
Sbjct: 370 AGYTPEEERWKCRYCQFAKSCPG 392

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	405
TAIR|locus:2175093	413	AT5G60370 "AT5G60370" [Arabido	0.861	0.845	0.487	1.1e-89
UNIPROTKB|A2VDX7	370	EXO5 "Exonuclease V" [Bos taur	0.698	0.764	0.284	2.9e-32
RGD|1309802	373	Exo5 "exonuclease 5" [Rattus n	0.701	0.761	0.306	1.3e-31
MGI|MGI:1920422	373	Exo5 "exonuclease 5" [Mus musc	0.683	0.742	0.299	1.8e-30
UNIPROTKB|Q9H790	373	EXO5 "Exonuclease V" [Homo sap	0.698	0.758	0.294	1.2e-28
ZFIN|ZDB-GENE-051113-108	394	zgc:123272 "zgc:123272" [Danio	0.683	0.703	0.298	1.9e-28
POMBASE|SPBC685.02	409	exo5 "mitochondrial single str	0.402	0.398	0.335	4.6e-20
UNIPROTKB|G4ND20	623	MGG_00297 "Uncharacterized pro	0.330	0.215	0.354	7.6e-18
CGD|CAL0001175	628	DEM1 [Candida albicans (taxid:	0.145	0.093	0.360	5.8e-07

TAIR|locus:2175093 AT5G60370 "AT5G60370" [Arabidopsis thaliana (taxid:3702)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 181/371 (48%), Positives = 240/371 (64%)

Query:    19 VTPDIPIEIVSEEEMALIDXXXXXXXX---XXXXXXXXXXXXXXXNARFIHSISFLSKRS 75
             V P+IPIEIVSEEEMA++D                          + + I SI+  SKR 
Sbjct:    38 VFPEIPIEIVSEEEMAILDAALAASRSILPSVIRSVSPSRITAGGSPKTIRSITLFSKRK 97

Query:    76 FSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFG 135
              S    SDIE+               S L RFR+N+AL VTD+T TEWCEK+ME  L FG
Sbjct:    98 LSAC--SDIEE---------------SYLHRFRRNQALGVTDLTGTEWCEKQMENVLCFG 140

Query:   136 SKKVNKVMKVGRARHAELXXXXXXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTREL 195
              +KVNK MKVG+ARH +L          +V S ED WA+KL NSI GVNQ LFEG TREL
Sbjct:   141 RRKVNKAMKVGQARHLQLEEEVVKKVRVKVESNEDKWALKLLNSIAGVNQFLFEGRTREL 200

Query:   196 PILGFIKGVWMVGVIDEIQMPVKETARN--PILVDTKTRAQYTLPAESQKRNGRLQLMCY 253
              +LGF+ G W+VG+IDE++    E + +  PIL+DTKTR + TLPAE Q+RNGRLQLM Y
Sbjct:   201 LLLGFVGGQWIVGIIDELRKAYAEESSDSGPILIDTKTRLRDTLPAEPQRRNGRLQLMLY 260

Query:   254 KYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNM 313
             K +WD +  + FP+  F+D+FSLN + +LS+++ +  +NAG  A+TL ++V+Y+ N + M
Sbjct:   261 KLLWDTIVKEGFPTGPFFDYFSLNRNYVLSQDVRDHIANAGIKAQTLEEIVRYYENTFQM 320

Query:   314 LPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWK 373
             LP ++NQLLL+YEFQKDQS++ E +F  D++   S+    +EFW+ EREA +TP E+RWK
Sbjct:   321 LPIANNQLLLKYEFQKDQSIIAEIRFNHDHEWVMSKYREVIEFWRNEREAGYTPEEERWK 380

Query:   374 CRYCQFESVCP 384
             CRYCQF   CP
Sbjct:   381 CRYCQFAKSCP 391

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|A2VDX7 EXO5 "Exonuclease V" [Bos taurus (taxid:9913)]

 Score = 353 (129.3 bits), Expect = 2.9e-32, P = 2.9e-32
 Identities = 84/295 (28%), Positives = 143/295 (48%)

Query:    95 KRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFG---SKKVNKVMKVGRARHA 151
             KR +   S ++RF   + L VTD++   WCE++M +   F    + + + ++  G + H 
Sbjct:    61 KRRLDVSSPMERFHL-KYLYVTDLSTQNWCEQQMVYGKEFSGFLTPEKSAILDTGASIHL 119

Query:   152 ELXXXXXXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVID 211
                          + S ED WAVK  N ++ +  L  EG  RE P+   ++GV +VGVID
Sbjct:   120 ARELEVHDLVSIPITSKEDAWAVKFLNILSMIPTLQSEGRIREFPVFAEVEGVLLVGVID 179

Query:   212 EIQMPVKETARNPI-LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQF 270
             E+      TA   + L + KTR    LP+++QK+    Q+  YKY++D +      +   
Sbjct:   180 ELHY----TASGELELTELKTRGNPVLPSDAQKKKDYFQVSLYKYIFDAMVQGKVTAASL 235

Query:   271 YDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKY-FRNMW-NMLPASHNQLLLRYEFQ 328
                  L+ +  L   ++      G+  K+LGDL++  F ++  + LP   + L + Y  Q
Sbjct:   236 IHHTKLDPEKPLGPSVLRHAQQGGYSVKSLGDLIELVFLSLTLSDLPLI-DSLKIEYVHQ 294

Query:   329 KDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
                ++LG E  AF      S+++  + +W G RE     +E+ WKCR C +  +C
Sbjct:   295 GTATVLGTEMVAFAEKEVRSKVQHYMTYWMGHREPQGVDVEEAWKCRMCNYADIC 349

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=ISS

GO:0036297 "interstrand cross-link repair" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

RGD|1309802 Exo5 "exonuclease 5" [Rattus norvegicus (taxid:10116)]

 Score = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 90/294 (30%), Positives = 139/294 (47%)

Query:    95 KRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNL-LFGSKKVNK--VMKVGRARHA 151
             KR +   S +DRF   + L VTD+   +WCE +M +   L GS    K  V+ +G + H 
Sbjct:    64 KRGLDVLSPMDRFHL-KYLYVTDLCTQDWCELQMVYGKELPGSLTPEKAAVLDIGASIHL 122

Query:   152 ELXXXXXXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVID 211
                            + ED WAVK  N ++ V  L  EG  RE P+ G ++G+++VGVID
Sbjct:   123 AKELELHDLVTVPTTTKEDAWAVKFLNILSMVPTLQSEGRIREFPVFGEVEGIFLVGVID 182

Query:   212 EIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFY 271
             E+    K       L + KTR +  LP  +QK+    Q+  YKY++D +           
Sbjct:   183 ELHYTSKGELE---LAELKTRRRPVLPLSAQKKKDYFQVSLYKYIFDAMVQGKVTPASLI 239

Query:   272 DFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKY-FRNMW-NMLPASHNQLLLRYEFQK 329
                 L  D  L   ++      G   K+LGDL++  F ++  + LPA  + L L Y  Q+
Sbjct:   240 HHTKLCVDKPLGPSVLRHARQGGVSVKSLGDLMELVFLSLTLSDLPAI-DTLKLEYVHQE 298

Query:   330 DQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
               + LG E  AF+     S++   + +W G R+     +E+ WKCR C +  +C
Sbjct:   299 TATTLGTEIVAFEEKEVKSKVRHFVAYWMGRRDPQGVDVEEAWKCRTCDYVDIC 352

GO:0005634 "nucleus" evidence=ISO

GO:0005829 "cytosol" evidence=ISO

GO:0036297 "interstrand cross-link repair" evidence=ISO

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=ISO

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=ISO

MGI|MGI:1920422 Exo5 "exonuclease 5" [Mus musculus (taxid:10090)]

 Score = 336 (123.3 bits), Expect = 1.8e-30, P = 1.8e-30
 Identities = 86/287 (29%), Positives = 136/287 (47%)

Query:   102 SLLDRFRKNRALSVTDVTDTEWCEKKMEFNL-LFGSKKVNK--VMKVGRARHAELXXXXX 158
             S ++RF   + L VTD+    WCE +M +   L GS    K  V+  G + H        
Sbjct:    71 SPMERFHL-KYLYVTDLCTQNWCELQMVYGKELPGSLTPEKAAVLDTGASIHLAKELELH 129

Query:   159 XXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVK 218
                   + + ED WAVK  N +  +  L  EG  RE P+ G ++G+++VGVIDE+    K
Sbjct:   130 DLVTVPIATKEDAWAVKFLNILAMIPALQSEGRVREFPVFGEVEGIFLVGVIDELHYTSK 189

Query:   219 ETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNS 278
                    L + KTR +  LP  +QK+    Q+  YKY++D +               L  
Sbjct:   190 GELE---LAELKTRRRPVLPLPAQKKKDYFQVSLYKYIFDAMVQGKVTPASLIHHTKLCL 246

Query:   279 DCILSEEIIEKTSNAGFPAKTLGDLVKY-FRNMW-NMLPASHNQLLLRYEFQKDQSLLGE 336
             D  L   ++      G   K+LGDL++  F ++  + LPA  + L L Y  Q+  ++LG 
Sbjct:   247 DKPLGPSVLRHARQGGVSVKSLGDLMELVFLSLTLSDLPAI-DTLKLEYIHQETATILGT 305

Query:   337 EKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
             E  AF+     S+++  + +W G R+     +E+ WKCR C +  +C
Sbjct:   306 EIVAFEEKEVKSKVQHYVAYWMGHRDPQGVDVEEAWKCRTCDYVDIC 352

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0004527 "exonuclease activity" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005829 "cytosol" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0036297 "interstrand cross-link repair" evidence=ISO

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=ISO

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=ISO

UNIPROTKB|Q9H790 EXO5 "Exonuclease V" [Homo sapiens (taxid:9606)]

 Score = 319 (117.4 bits), Expect = 1.2e-28, P = 1.2e-28
 Identities = 87/295 (29%), Positives = 138/295 (46%)

Query:    95 KRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNL-LFGSKKVNK--VMKVGRARHA 151
             KR +   S ++RF   + L VTD+    WCE +  +   L G     K  V+  G + H 
Sbjct:    64 KRGLDILSPMERFHL-KYLYVTDLATQNWCELQTAYGKELPGFLAPEKAAVLDTGASIHL 122

Query:   152 ELXXXXXXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVID 211
                          V + ED WA+K  N +  +  L  EG  RE P+ G  +GV +VGVID
Sbjct:   123 ARELELHDLVTVPVTTKEDAWAIKFLNILLLIPTLQSEGHIREFPVFGEGEGVLLVGVID 182

Query:   212 EIQMPVKETARNPI-LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQF 270
             E+      TA+  + L + KTR +  LP E+QK+    Q+  YKY++D +          
Sbjct:   183 ELHY----TAKGELELAELKTRRRPMLPLEAQKKKDCFQVSLYKYIFDAMVQGKVTPASL 238

Query:   271 YDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKY-FRNMW-NMLPASHNQLLLRYEFQ 328
                  L  +  L   ++      GF  K+LGDL++  F ++  + LP   + L + Y  Q
Sbjct:   239 IHHTKLCLEKPLGPSVLRHAQQGGFSVKSLGDLMELVFLSLTLSDLPVI-DILKIEYIHQ 297

Query:   329 KDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
             +  ++LG E  AF      ++++  + +W G RE     +E+ WKCR C +  +C
Sbjct:   298 ETATVLGTEIVAFKEKEVRAKVQHYMAYWMGHREPQGVDVEEAWKCRTCTYADIC 352

GO:0003677 "DNA binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=IDA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IDA

GO:0008310 "single-stranded DNA specific 3'-5' exodeoxyribonuclease activity" evidence=TAS

GO:0042803 "protein homodimerization activity" evidence=TAS

GO:0036297 "interstrand cross-link repair" evidence=IMP

GO:0005829 "cytosol" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

ZFIN|ZDB-GENE-051113-108 zgc:123272 "zgc:123272" [Danio rerio (taxid:7955)]

 Score = 317 (116.6 bits), Expect = 1.9e-28, P = 1.9e-28
 Identities = 86/288 (29%), Positives = 133/288 (46%)

Query:   102 SLLDRFRKNRALSVTDVTDTEWCEKKMEFNLL---FGSKKVNKV-MKVGRARHAELXXXX 157
             S + RFRK   LSVT + D  WCE K  +NLL      K++ +  +++G+  H       
Sbjct:    91 SPMQRFRKQH-LSVTLLCDQTWCEMKSVYNLLKPHIKRKEMQRTEVQIGQEIHLSRELEI 149

Query:   158 XXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPV 217
                    +R+ ED  AVKL N +  +  L      RE P+ G  +GV+++GVIDE+    
Sbjct:   150 QDVVPVDIRTREDGEAVKLLNMLHMIPLLEAGQRVREFPVFGVQEGVFIMGVIDELMYNQ 209

Query:   218 KETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLN 277
             K      +L + KTR Q +LP+ +Q +    Q+  YK ++D L          +D   L 
Sbjct:   210 KGEL---VLNELKTRRQNSLPSSAQDKVNCFQVGLYKLLFDGLVRGEMKKNHIFDHLKLR 266

Query:   278 SDCILSEEIIEKTSNAGFPAKTLGDLVK--YFRNMWNMLPASHNQLLLRYEFQKDQSLLG 335
             S  IL   +     N G  A+T  +LV+        + LP   + L + Y  Q     +G
Sbjct:   267 SAQILGAGVQAHAKNLGVHARTFEELVETLLITVSCSDLPCI-DLLQIEYFHQGSNGPIG 325

Query:   336 EEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVC 383
                  FD      +++  L +W G+RE     +E+ WKCR C +E +C
Sbjct:   326 TRVAPFDEAQIRGELQAYLSYWTGQREPKGVDIEEAWKCRSCLYEEIC 373

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA;ISS

GO:0005829 "cytosol" evidence=ISS

GO:0036297 "interstrand cross-link repair" evidence=ISS

GO:0005634 "nucleus" evidence=IEA;ISS

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=ISS

GO:0016787 "hydrolase activity" evidence=IEA

GO:0051536 "iron-sulfur cluster binding" evidence=IEA

GO:0004527 "exonuclease activity" evidence=IEA

GO:0006281 "DNA repair" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0003677 "DNA binding" evidence=IEA

GO:0004518 "nuclease activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

POMBASE|SPBC685.02 exo5 "mitochondrial single stranded DNA specific 5'-3' exodeoxyribonuclease Exo5 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 191 (72.3 bits), Expect = 4.6e-20, Sum P(2) = 4.6e-20
 Identities = 62/185 (33%), Positives = 87/185 (47%)

Query:   102 SLLDRFRKNRA-LSVTDVTDTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELXXXXXXX 160
             SL   FRK++  L+VTD+    WCE + E+ LL   KK    M+ G   H  L       
Sbjct:    63 SLFQLFRKHKGYLNVTDLVLPLWCEVQHEYYLLRRIKKKTPKMERGIKLHQILEYETSPP 122

Query:   161 XXXRV---RSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQM-- 215
                RV    S E+ WA++L   + G+  L   G+TRE PI G+ K   + G+IDEI +  
Sbjct:   123 SERRVLDRTSKEEPWALRLLRQLEGIMLLQKNGITREFPIWGYYKESSIFGIIDEISLNN 182

Query:   216 PVKETARNPI------------LVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAAD 263
             P K    + I             VD KTR     P  SQ  + ++QLM Y +++ N    
Sbjct:   183 PSKSNFNSDIRNYFNFKMYDLSFVDNKTRFSSRKPGASQILSSKVQLMYYVHLFLNY--- 239

Query:   264 NFPSM 268
              FPS+
Sbjct:   240 -FPSL 243

GO:0000002 "mitochondrial genome maintenance" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005739 "mitochondrion" evidence=ISO

GO:0005829 "cytosol" evidence=IDA

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

UNIPROTKB|G4ND20 MGG_00297 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 174 (66.3 bits), Expect = 7.6e-18, Sum P(2) = 7.6e-18
 Identities = 50/141 (35%), Positives = 70/141 (49%)

Query:    83 DIEDLGHLGMTQKRNIIA-KSLLDRFRK--NRALSVTDVTDTEWCEKKMEFNL--LFGSK 137
             DIEDL     +  +     KS L RFR    + LSVTD +   WCE++ E+ L  L G K
Sbjct:   172 DIEDLPQSSSSNNQAAQPLKSPLARFRTFPRKPLSVTDFSSLVWCEQQHEYTLTRLGGRK 231

Query:   138 KVNKVMKVGRARHAELXXXXXXXXXXRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPI 197
                  MK G   H +L           V + ED + +K++N I G+  L  +GLTREL +
Sbjct:   232 PRTAAMKGGTKIHEQLEREVYRTVRVEVMTKEDAFGLKIWNIIQGLRTLRDDGLTRELEV 291

Query:   198 LGFIKGVWMVGVID--EIQMP 216
              G + G  + G+ID   +Q P
Sbjct:   292 WGLVDGHVVNGLIDGLSVQHP 312

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

CGD|CAL0001175 DEM1 [Candida albicans (taxid:5476)]

 Score = 131 (51.2 bits), Expect = 5.8e-07, Sum P(2) = 5.8e-07
 Identities = 22/61 (36%), Positives = 36/61 (59%)

Query:   323 LRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESV 382
             + Y + K   LL E+ + +++  F +++E   +FW GERE    P ED  +C YC+F+S 
Sbjct:   537 VEYRYNKTSELLSEKVYDYNFSEFQAEVESASKFWNGEREV--IPTEDLSRCSYCEFQSK 594

Query:   383 C 383
             C
Sbjct:   595 C 595

GO:0005739 "mitochondrion" evidence=IEA

GO:0000002 "mitochondrial genome maintenance" evidence=IEA

GO:0045145 "single-stranded DNA specific 5'-3' exodeoxyribonuclease activity" 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)
Q9FKK6	EXO5_ARATH	3, ., 1, ., 1, 1, ., -	0.5248	0.8814	0.8644	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	405
pfam09810	315	pfam09810, Morph_protein1, Defects in morphology p	3e-85

>gnl|CDD|220416 pfam09810, Morph_protein1, Defects in morphology protein 1, mitochondrial precursor

 Score =  261 bits (670), Expect = 3e-85
 Identities = 105/313 (33%), Positives = 158/313 (50%), Gaps = 30/313 (9%)

Query: 102 SLLDRFRK--NRALSVTDVTDTEWCEKKMEFNLL-FGSKKVNKVMKVGRARHAELEKEVT 158
           S L+RFRK   +ALSVTD++   WCE + E+ L  FG KK    MK G   H +LE E+ 
Sbjct: 1   SPLERFRKPPKKALSVTDLSSPAWCELQYEYTLTKFGRKKRTAAMKRGIKIHEKLELELH 60

Query: 159 EKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQ---- 214
             V+V V + ED WA++L N I G+  L  EG+TRELP+ G  KG  + G+IDE+     
Sbjct: 61  TPVEVEVTTKEDAWALRLLNIIQGLRTLREEGITRELPVWGNYKGYLLNGIIDELSYENP 120

Query: 215 -MPVKETA---------RNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADN 264
              ++ETA            I+ DTKTR   +LP+E+Q R+  LQLM Y ++  ++    
Sbjct: 121 DPTLEETAASNYSSNAISELIISDTKTRRSKSLPSEAQMRSTLLQLMLYHHLLSDMVNGK 180

Query: 265 FPSMQFYDFFSLNSDCILS-----------EEIIEKTSNAGFPAKTLGDLVKYFRNMWNM 313
                 ++ + L+     S           ++ I  +++     K L +LVK  +  +  
Sbjct: 181 VDIESLFERYGLDPLKEFSDAFEAQIGGLNDQSISDSTSILLKYKNLEELVKLVKLSFQK 240

Query: 314 --LPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDR 371
             LP    +L + YEF+    +   E F FD     + +   + +W+GERE    P+E+ 
Sbjct: 241 TFLPIISPELTIEYEFEGTTEVFATESFPFDPKTLEAYLSELMAWWRGEREPRGVPVEEA 300

Query: 372 WKCRYCQFESVCP 384
           WKCR C+F   C 
Sbjct: 301 WKCRICEFADECE 313

Members of this family of proteins are thought to be involved in cellular morphology, though little else is known about them. Length = 315

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	405
PF09810	322	Exo5: Exonuclease V - a 5' deoxyribonuclease; Inte	100.0
KOG4760	365	consensus Uncharacterized conserved protein [Funct	100.0
PF12705	257	PDDEXK_1: PD-(D/E)XK nuclease superfamily; PDB: 1W	99.78
TIGR00372	178	cas4 CRISPR-associated protein Cas4. This model re	99.6
TIGR03623	874	probable DNA repair protein. Members of this prote	99.36
TIGR02774	1076	rexB_recomb ATP-dependent nuclease subunit B. DNA	99.31
PHA01622	204	CRISPR-associated Cas4-like protein	99.29
PHA00619	201	CRISPR-associated Cas4-like protein	99.28
TIGR02773	1158	addB_Gpos ATP-dependent nuclease subunit B. DNA re	99.14
PF01930	162	Cas_Cas4: Domain of unknown function DUF83; InterP	99.11
TIGR02786	1021	addB_alphas double-strand break repair protein Add	99.07
COG2887	269	RecB family exonuclease [DNA replication, recombin	99.01
PF12684	237	DUF3799: PDDEXK-like domain of unknown function (D	98.56
COG3857	1108	AddB ATP-dependent nuclease, subunit B [DNA replic	98.47
TIGR02784	1141	addA_alphas double-strand break repair helicase Ad	98.17
COG1468	190	CRISPR-associated protein Cas4 (RecB family exonuc	98.14
TIGR01896	271	cas_AF1879 CRISPR-associated protein, Csa1 family.	97.83
KOG4760	365	consensus Uncharacterized conserved protein [Funct	97.71
PRK13909	910	putative recombination protein RecB; Provisional	97.58
TIGR03491	457	RecB family nuclease, putative, TM0106 family. Mem	97.46
TIGR02785	1232	addA_Gpos recombination helicase AddA, Firmicutes	97.17
COG1074	1139	RecB ATP-dependent exoDNAse (exonuclease V) beta s	96.53
PF06023	289	DUF911: Archaeal protein of unknown function (DUF9	96.46
PF10926	372	DUF2800: Protein of unknown function (DUF2800); In	96.42
PRK09709	877	exonuclease VIII; Reviewed	95.91
KOG1805	1100	consensus DNA replication helicase [Replication, r	95.59
TIGR00609	1087	recB exodeoxyribonuclease V, beta subunit. All pro	92.27
COG2251	474	Predicted nuclease (RecB family) [General function	91.26
PF08696	209	Dna2: DNA replication factor Dna2; InterPro: IPR01	90.95
PRK10876	1181	recB exonuclease V subunit beta; Provisional	90.75

>PF09810 Exo5: Exonuclease V - a 5' deoxyribonuclease; InterPro: IPR019190 Members of this family of proteins are thought to be involved in cellular morphology, though little else is known about them

Probab=100.00  E-value=3.8e-83  Score=636.96  Aligned_cols=285  Identities=38%  Similarity=0.699  Sum_probs=270.3

Q ss_pred             chHHHhhc--CCCccccccCCccccccceeeeeec-CCccccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHH
Q 015510          102 SLLDRFRK--NRALSVTDVTDTEWCEKKMEFNLLF-GSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFN  178 (405)
Q Consensus       102 Spl~rfr~--k~~LSVTdL~~~~WCElq~~Y~l~~-g~~~~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln  178 (405)
                      ||++|||+  +++||||||+++.|||+|++|+++. |.+.+|+||++|+++|++||+|+|+.|+|+|.++||.||++|+|
T Consensus         1 spl~rfr~~~~~~lsVT~l~~~~WCE~q~~y~l~~~~~~~~t~~m~~G~~~H~~LE~evh~~v~v~v~t~eD~~alrl~N   80 (322)
T PF09810_consen    1 SPLERFRRPPKPRLSVTDLLTQSWCELQYEYDLYSSGRKRRTKAMKQGTKIHQKLEREVHPPVEVEVTTKEDAWALRLLN   80 (322)
T ss_pred             ChhHHhhcCCCCCceeecccchhhhhhhhhhhhhccCcccCCHHHHHHHHHHHHHHHhhccceeeeeCChHHHHHHHHHH
Confidence            79999998  8899999999999999999999999 77779999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCC---------------CCcEEEeecccCCCCCCChhhc
Q 015510          179 SITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETA---------------RNPILVDTKTRAQYTLPAESQK  243 (405)
Q Consensus       179 ~i~~l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~---------------~~l~I~D~KTR~~~~lP~~~~~  243 (405)
                      +|++|++|+++|++||++|||+++|++|+||||+|.+.+.+..               .+++|+|+|||+++++|++++.
T Consensus        81 ~i~~L~~L~~~G~tREl~V~G~v~g~lV~GIIDeL~~~~~~~~~~~~~~~~~~~~~~~~~i~IsDvKTR~~~~lPs~~~~  160 (322)
T PF09810_consen   81 IIQGLRTLRQTGLTRELPVWGFVDGVLVSGIIDELSLENPDPELEESALSSYSDFEISKEIYISDVKTRSSRSLPSQSQV  160 (322)
T ss_pred             HHHHHHHHHhcCeeEEEEEEEeECCEEEEEEEeecccCCCCccccccccccccccccccceEEEeccccccCCCCchhhh
Confidence            9999999999999999999999999999999999999766311               2899999999999999999999


Q ss_pred             cchhhHHHHHHHHHHHhhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcC-----------------CCCCCCHHHHHHH
Q 015510          244 RNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNA-----------------GFPAKTLGDLVKY  306 (405)
Q Consensus       244 ~~~~lQLmlY~~ll~~L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~i-----------------Gf~~~tl~dllry  306 (405)
                      +++++||||||+||++|+.++++++++|++|||||++|||+.|+++++.+                 +..+.||.+|+.+
T Consensus       161 ~~aklQlmlY~~~l~~L~~~~~~~~~~~~~~~Ld~~~p~S~~f~~~~~~l~~~~~~~~~~~~~~~~~~~~~~tL~~l~~~  240 (322)
T PF09810_consen  161 RSAKLQLMLYRRFLDDLASGKFDYEKLFERYGLDPDKPFSDEFLAQIGRLNDEPSSSSDSDSIEAEELLKYNTLRSLWAL  240 (322)
T ss_pred             hhhHHHHHHHHHHHHHHhcCCcCHHHHHHHcCCCCCCCCCHHHHHHHhhccCCcccccccccccccccccCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999986433                 4556789999999


Q ss_pred             HHHHhhh--CCCCCCceEEEEEEccCCCeeeeeeeecCHHHHHHHHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCC
Q 015510          307 FRNMWNM--LPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       307 ~~~~~~~--lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~  384 (405)
                      +.+.++.  +|.+++.|.|+|+++++|++||++.|.||+++|+.+++++++||+|+|+|+||+++++|||+||||++.|+
T Consensus       241 ~~~~~~~~~lp~~s~~l~veY~~~~~~~~~~~~~f~yd~~~L~~~l~~~~~fW~G~R~p~gV~~ee~~KC~~CeF~~~C~  320 (322)
T PF09810_consen  241 LQQEFRKTFLPLLSDELTVEYYHQGDGSIFGTKSFPYDPDELDSYLEDSLSFWFGEREPEGVPIEEAWKCRYCEFRDVCE  320 (322)
T ss_pred             HHHHhhhhccccccccccceeecCCCCCeeeeEEEEeCHHHHHHHHHHHhHHhCCCCCCCCCCHHHcCCCCCCCCCCCCC
Confidence            9888886  88899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             Cc
Q 015510          385 AV  386 (405)
Q Consensus       385 w~  386 (405)
                      ||
T Consensus       321 WR  322 (322)
T PF09810_consen  321 WR  322 (322)
T ss_pred             cC
Confidence            97

Mutation of the Saccharomyces cerevisiae (Baker's yeast) gene results in a number of features that include aberrant mitochondria and fragmentation of the nucleus [].

>KOG4760 consensus Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=3.3e-58  Score=444.35  Aligned_cols=319  Identities=31%  Similarity=0.528  Sum_probs=290.3

Q ss_pred             CCCCC-CCCCCCeeeeChhhHHHHHHHHhcCCCcCCCCCcchhhhhhccccceeeeecccccccCCCCCCchhhcccccc
Q 015510           14 VNSAN-VTPDIPIEIVSEEEMALIDAALAAPRCCSPSSSLSFASQLQRNARFIHSISFLSKRSFSGRTESDIEDLGHLGM   92 (405)
Q Consensus        14 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~died~~~~~~   92 (405)
                      +++|+ +.|+|||||+.+|||++.+|||+++-                                      ||        
T Consensus        32 ~~~~lvv~P~~~ie~~~~e~~~i~~~~lk~s~--------------------------------------~~--------   65 (365)
T KOG4760|consen   32 PQSHLVVFPEIPIEILGEEEKPILDAALKASL--------------------------------------DI--------   65 (365)
T ss_pred             cccccccCCCCchhhhccchhHHHHHHHHhhh--------------------------------------hH--------
Confidence            45566 66999999999999999999998631                                      66        


Q ss_pred             cccccCCCCchHHHhhcCCCccccccCCccccccceeeeeecCCccccH-HHHHHHHHHHHHHHhhccceeeeeccchhH
Q 015510           93 TQKRNIIAKSLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKVNK-VMKVGRARHAELEKEVTEKVKVRVRSTEDI  171 (405)
Q Consensus        93 ~~~~~~~~~Spl~rfr~k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~t~-am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~  171 (405)
                                .+.||+ +..||||||+++.|||.|..|.++..+...++ -|.+|..||+.+|.+++..+.+.|++.++.
T Consensus        66 ----------~~~r~H-~~yl~Vtdlvsp~wce~q~sy~l~r~i~~~s~~kl~~g~~ih~~~e~e~~~~~~~~Vtd~t~~  134 (365)
T KOG4760|consen   66 ----------LMERFH-SIYLSVTDLVSPSWCEAQGSYELIRSITLFSKRKLSAGASIHESYEHEFRRNQTLGVTDLTGA  134 (365)
T ss_pred             ----------HHHHHh-cccchhhhccchhhhccCCccchhhhhcccchhhhhccccHHHHHHhhccCcccccccccccH
Confidence                      268887 56899999999999999999988866666665 799999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHH
Q 015510          172 WAVKLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLM  251 (405)
Q Consensus       172 wa~klln~i~~l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLm  251 (405)
                      ||+++++.+-++-+|-.+|..||+||||+.+|+.+.|||||+.++--   +++.+.|.|||..+.+|..+|.....+|+|
T Consensus       135 wa~~~lr~l~~i~~lq~~g~~refpv~ge~e~v~~vgVidE~~~~~f---~~lel~~lktr~~~~~pg~~q~l~~~~q~~  211 (365)
T KOG4760|consen  135 WAIKFLRILLLIPTLQSEGHIREFPVFGEGEGVLLVGVIDELHYTAF---GELELAELKTRRRPMLPGEAQKLKDCFQVS  211 (365)
T ss_pred             HHHHHHHHHhhhhhhhhcCccceeeeccccceeEEEEEEeehhhhhh---hhhHHhhhccccccccccHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999865   589999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHH--HHHHHHHHhhhCCCCCCceEEEEEEcc
Q 015510          252 CYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGD--LVKYFRNMWNMLPASHNQLLLRYEFQK  329 (405)
Q Consensus       252 lY~~ll~~L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~d--llry~~~~~~~lP~~~~~L~IeY~~~~  329 (405)
                      +|.++++.+.++++..-...-+..|--.+++-+.|..++..-|+..+.+.+  .|.|+.+.+.+||.++ +|.|+|++|+
T Consensus       212 ~y~~~f~~~~q~~~~p~s~~~~~kL~l~k~lw~~vl~~~~~~Gagvksl~~l~~lvf~s~t~~~Lpv~d-~L~i~Y~~qk  290 (365)
T KOG4760|consen  212 LYKYIFDAMVQGKVTPASLIHHTKLCLEKPLWPSVLRHAQQGGAGVKSLGDLMELVFLSLTLSDLPVID-ILKIEYIHQK  290 (365)
T ss_pred             HHHhhhHHHhcccCccccccchhhhhhhhhhhHHHHHhhccCCcccccccchhHHHHHhhhhhccchhh-hheeeeeecC
Confidence            999999999998887777776777878889999999999888776666655  5889999999999887 9999999999


Q ss_pred             CCCeeeeeeeecCHHHHHHHHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCCCcCCCCCCC
Q 015510          330 DQSLLGEEKFAFDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAVLKPEITP  393 (405)
Q Consensus       330 d~~~~~~~~f~yd~~~L~~~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~w~~~~~~~~  393 (405)
                      |++++++..|.|+++|+++..+++++||+|+|||.|||+||+||||+|+|++.|+|++..+.-+
T Consensus       291 t~~V~~~~~f~f~~k~v~aky~~~~~fW~n~REp~gvp~EE~wKCR~C~fak~C~w~k~~~~~s  354 (365)
T KOG4760|consen  291 TATVLGTEIFAFKEKEVRAKYQHYMAFWMNHREPQGVPVEEAWKCRTCTFAKICEWRKGSGVLS  354 (365)
T ss_pred             cceeEeeeeecccHHHHHHHHHHHHHHHhccCCCCCCCHHHhhccccchhhhhcCCcccCCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999887633

>PF12705 PDDEXK_1: PD-(D/E)XK nuclease superfamily; PDB: 1W36_B 3K70_B 3U4Q_A 3U44_A

Probab=99.78  E-value=6.2e-20  Score=168.39  Aligned_cols=215  Identities=19%  Similarity=0.244  Sum_probs=126.1

Q ss_pred             CccccccCCccccccceeeeeecCCccc-----cHHHHHHHHHHHHHHHhhccceeeee---ccchhHHHHHHHHHHHH-
Q 015510          112 ALSVTDVTDTEWCEKKMEFNLLFGSKKV-----NKVMKVGRARHAELEKEVTEKVKVRV---RSTEDIWAVKLFNSITG-  182 (405)
Q Consensus       112 ~LSVTdL~~~~WCElq~~Y~l~~g~~~~-----t~am~~Gt~iH~~LE~e~~~~v~v~i---~t~ed~wa~klln~i~~-  182 (405)
                      +||+|+|.++..|+++|+|..+.+.+..     +.++..|+.+|+.||........-..   ....+.+..+++..+.. 
T Consensus         1 ~~S~S~l~~~~~CP~~~~~~~~~~l~~~~~~~~~~~~~~G~~~H~~le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (257)
T PF12705_consen    1 RLSASSLETYLRCPRRFYLRYILGLKEPEEKEDSDALEFGTAVHEILERFYRELKEDEFLEDDEELEEQIEELLEELEEL   80 (257)
T ss_dssp             --BHHHHHHHHH-HHHHHHHTTS--------SS--CHHHHHHHHHHHCCCHTHHHHCT--HCCCCHHHHHHHHHHHHHCH
T ss_pred             CCCHHHHHHHHHCHHHHHHHhccCCCCCccccccchhhhhHHHHHHHHHHHHhcccchhhhhHHHHHHHHHHHHHHHHHH
Confidence            5899999999999999999998876653     57999999999999987754111111   11112222222211110 


Q ss_pred             ---------------------HHHHh--HcC--cEEEEEEEEEEC--CEEEEEEEeEEeCCCCCCCCCcEEEeecccCCC
Q 015510          183 ---------------------VNQLL--FEG--LTRELPILGFIK--GVWMVGVIDEIQMPVKETARNPILVDTKTRAQY  235 (405)
Q Consensus       183 ---------------------l~~L~--~~G--~~REl~V~G~i~--G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~  235 (405)
                                           +....  ..+  ...|.++...++  ++.|+|+||+|....+   +++.|+||||+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~~~~~~~~~~~~l~G~iD~i~~~~~---g~~~IvDyKt~~~~  157 (257)
T PF12705_consen   81 FREESDEPKLKERRITNAKLFIEEERSLPDFEPIAVEQRFEVEIDDEGVRLRGRIDRIDRDKD---GRVRIVDYKTGSSP  157 (257)
T ss_dssp             GGCSCCTHHHCSHHHHHHHHHHHHHHCCHSGCEEEEEEEEEEEECCEEEEEEEEEEEEEECES---STEEEEEEESSS-S
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHHhhccCCCeeeeeeeeeeccCCCceEEEEEEeEEEEeCC---CcEEEEEEcCCCCC
Confidence                                 00000  112  588999999999  9999999999999933   48999999999986


Q ss_pred             CCCChhhccchhhHHHHHHHHHHHhhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCC
Q 015510          236 TLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLP  315 (405)
Q Consensus       236 ~lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP  315 (405)
                      .   ........+|+.+|..++.....            |.++                                     
T Consensus       158 ~---~~~~~~~~~Ql~~Y~~~l~~~~~------------~~~~-------------------------------------  185 (257)
T PF12705_consen  158 D---DKSDLKYDLQLALYALALEQQFP------------GKPP-------------------------------------  185 (257)
T ss_dssp             S---SHHHHHCHHHHHHHHHHHHHHHH------------TSHE-------------------------------------
T ss_pred             C---ccchhhhHHHHHHHHHHHHhccc------------cCCc-------------------------------------
Confidence            3   22222389999999999988741            1111                                     


Q ss_pred             CCCCceEEEEEEccCCCeeeeeeeecCHHHHHHHHHhhhhhhccccc----c--CCCCCCCcccCCCCCCCCCCC
Q 015510          316 ASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQIEVCLEFWKGERE----A--SFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       316 ~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~~l~~~~~fW~G~Re----~--~~V~~ee~~KCk~CeF~~~C~  384 (405)
                         ..+.+.|..-..........+.++.+.++...+..-..|...+.    .  ..+++.....|++|+|+..|+
T Consensus       186 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~C~~C~~~~~C~  257 (257)
T PF12705_consen  186 ---DKIGLVYLFLRQPKSPRRRKVDFSDEELEEFRERIRELLEEIAAGEFDGDIEPFPPPNSEHCSYCPFRDICR  257 (257)
T ss_dssp             ---EEEEEEEEESSS--CC-TT--EE-HHHHHHHHHHHHHHHHHHHHHHHTT----EE-SS--TTSS-TTHHHHT
T ss_pred             ---eeEEEEEEEecCCCccccccccCcHHHHHHHHHHHHHHHHHHHhhhhcCCccCCCCCCCCCCCCCCCcccCC
Confidence               14456666533221111235667777776655555554444332    1  334557899999999999995

>TIGR00372 cas4 CRISPR-associated protein Cas4

Probab=99.60  E-value=8.8e-15  Score=132.52  Aligned_cols=173  Identities=21%  Similarity=0.349  Sum_probs=119.7

Q ss_pred             ccccccCCccccccceeeeeecCCccc-cHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHHHhHcCc
Q 015510          113 LSVTDVTDTEWCEKKMEFNLLFGSKKV-NKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGL  191 (405)
Q Consensus       113 LSVTdL~~~~WCElq~~Y~l~~g~~~~-t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~L~~~G~  191 (405)
                      +++|++..+.+|++++||....+.+.. +..|..|+.+|..++......                          .....
T Consensus         1 i~~s~i~~~~~CpR~~~~~~~~~~~~~~~~~~~~G~~~h~~~~~~~~~~--------------------------~~~~~   54 (178)
T TIGR00372         1 ITVSDVLEYLYCPRKLWYMKKGGSERFSEVRMILGRLIHERAESFLKSL--------------------------GGVRE   54 (178)
T ss_pred             CChHHhHHHHhChHHHHHHHhhcccccchhHHHHHHHHHHHhhhhhhcc--------------------------CCEEE
Confidence            478999999999999999998887764 445999999999998433111                          00113


Q ss_pred             EEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCCCCchhhh
Q 015510          192 TRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFY  271 (405)
Q Consensus       192 ~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~  271 (405)
                      .+|+++..  +++.+.|+||.|...+    +++.|+|+||++.+.      ...+++|+.+|.+++.+...         
T Consensus        55 ~~~v~l~~--~~~~l~G~iD~i~~~~----~~~~ive~Ktg~~~~------~~~~~~Ql~~Ya~~l~~~~~---------  113 (178)
T TIGR00372        55 EKEVPLKS--KKLGLKGVIDVVLEAD----GELVPVEVKSGKPKL------REAHKYQLLAYAYLLEEMYG---------  113 (178)
T ss_pred             EEeeEeEc--ccCCcEEEEEEEEEEC----CeEEEEEEecCCCCC------ChhHHHHHHHHHHHHHHhhC---------
Confidence            45555544  7778999999999764    379999999998653      16899999999999988631         


Q ss_pred             hhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHHHHHHHH-
Q 015510          272 DFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNSQI-  350 (405)
Q Consensus       272 ~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~~l-  350 (405)
                           +.                                        ..-.|.|...+  ...   .+.+++++++... 
T Consensus       114 -----~v----------------------------------------~~g~l~y~~~~--~~~---~v~~~~~~~~~~~~  143 (178)
T TIGR00372       114 -----EI----------------------------------------VRGYILYIEAG--KKL---EVEISEELRKKAEK  143 (178)
T ss_pred             -----CC----------------------------------------CcEEEEEEeCC--cEE---EecCCHHHHHHHHH
Confidence                 11                                        13455665432  222   5677766555433 


Q ss_pred             --HhhhhhhccccccCCCCCCCcccCCCCCCCCCCC
Q 015510          351 --EVCLEFWKGEREASFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       351 --~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~  384 (405)
                        +...+.-.+...|.  +..+.++|++|.|+..|+
T Consensus       144 ~~~~i~~~~~~~~~P~--~~~~~~~C~~C~y~~~C~  177 (178)
T TIGR00372       144 LIEKIRELLEGGKPPS--PPKSSRKCKFCPYREICL  177 (178)
T ss_pred             HHHHHHHHHhCCCCCC--CCCCCCcCCCCCCccccC
Confidence              33333444443332  234689999999999996

This model represents a family of proteins associated with CRISPR repeats in a wide set of prokaryotic genomes. This scope of this model has been broadened since it was first built to describe an archaeal subset only. The function of the protein is undefined. Distantly related proteins, excluded from this model, include ORFs from Mycobacteriophage D29 and Sulfolobus islandicus filamentous virus and a region of the Schizosaccharomyces pombe DNA replication helicase Dna2p.

>TIGR03623 probable DNA repair protein

Probab=99.36  E-value=2.3e-12  Score=143.83  Aligned_cols=139  Identities=16%  Similarity=0.075  Sum_probs=93.9

Q ss_pred             CCCccccccCCccccccceeeeeecCCcc------ccHHHHHHHHHHHHHHHhhccceee----eeccch----------
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSKK------VNKVMKVGRARHAELEKEVTEKVKV----RVRSTE----------  169 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~~------~t~am~~Gt~iH~~LE~e~~~~v~v----~i~t~e----------  169 (405)
                      ..++|||.|.++.-|+++|++++..|.+.      .-.++..|+.+|++||..+....+-    .+ +.+          
T Consensus       595 ~~~~SvS~Le~~~~CP~~~f~~~~L~l~~~~~~~~~~~~~~~G~l~H~vLe~~~~~~~~~~~l~~~-~~~~~~~~~~~~~  673 (874)
T TIGR03623       595 RISGGTGLLKAQAACPFRAFAQHRLGARALEEPVDGLDALERGTLVHRVLELFWERLKNQEALNAL-DEAELEQLIAEAI  673 (874)
T ss_pred             cCcCcHHHHHHHHhChHHHHHHHhcCCCCCCccccCCChhHhHHHHHHHHHHHHHHhhchhhhhhC-CHHHHHHHHHHHH
Confidence            34689999999999999999999877554      2467999999999999987532110    01 000          


Q ss_pred             --------------------hHHHHHHHHHHHHHHHHhH----c-C---cEEEEEEEEEECCEEEEEEEeEEeCCCCCCC
Q 015510          170 --------------------DIWAVKLFNSITGVNQLLF----E-G---LTRELPILGFIKGVWMVGVIDEIQMPVKETA  221 (405)
Q Consensus       170 --------------------d~wa~klln~i~~l~~L~~----~-G---~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~  221 (405)
                                          ..|..++...+.   ..+.    . +   ...|..+...++|+.++|+||||+..++   
T Consensus       674 ~~~~~~~~~~~~~~~~~~~~~~~~~rl~~~~~---~~l~~e~~r~~f~~~~~E~~~~~~~~~~~l~GrIDRID~~~d---  747 (874)
T TIGR03623       674 EEALAEERARHSQTFPERFLELEQERLLQLLL---EWLELERKRPPFEVVATEQNHSIEIGGLELKLRIDRIDRLAD---  747 (874)
T ss_pred             HHHHHHhhhhccccccHHHHHHHHHHHHHHHH---HHHHhhccCCCCceEEEeeeecceecCEEEEEEEEeeeecCC---
Confidence                                001122222221   1111    1 1   4567776667899999999999998765   


Q ss_pred             CCcEEEeecccCCCCCCChhhccchhhHHHHHHHH
Q 015510          222 RNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYM  256 (405)
Q Consensus       222 ~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~l  256 (405)
                      ++..|+|||||+.+. ..........+||.+|..+
T Consensus       748 g~~~VIDYKTG~~~~-~~~~g~~~~~~QL~lYa~a  781 (874)
T TIGR03623       748 GSRLIIDYKTGAPSV-KDWLGERPVEPQLPLYALL  781 (874)
T ss_pred             CCEEEEEeCCCCCCc-chhhhccccCChHHHHHHh
Confidence            478899999998532 1111245678999999876

Members of this protein family are bacterial proteins of about 900 amino acids in length. Members show extended homology to proteins in TIGR02786, the AddB protein of double-strand break repair via homologous recombination. Members of this family, therefore, may be DNA repair proteins.

>TIGR02774 rexB_recomb ATP-dependent nuclease subunit B

Probab=99.31  E-value=5e-11  Score=135.84  Aligned_cols=250  Identities=12%  Similarity=0.043  Sum_probs=137.3

Q ss_pred             CCccccccCCccccccceeeeeecCCccc----cHHHHHHHHHHHHHHHhhcccee--e--e----ec--cc----hh--
Q 015510          111 RALSVTDVTDTEWCEKKMEFNLLFGSKKV----NKVMKVGRARHAELEKEVTEKVK--V--R----VR--ST----ED--  170 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq~~Y~l~~g~~~~----t~am~~Gt~iH~~LE~e~~~~v~--v--~----i~--t~----ed--  170 (405)
                      -++|||.|.++.-|+++|++++..|.+++    -.++..|+.+|.+||......-.  .  .    +.  ..    ..  
T Consensus       743 l~~SvS~le~~~~Cp~~~f~~y~L~l~e~~~~~~~~~~~G~l~H~~le~~~~~~~~e~~~~~~~~~v~~~~~~~~~~~~~  822 (1076)
T TIGR02774       743 LKLSASALTTFYNNQYSYFLRYVLGLEEEESIHPDARHHGNYLHRIFERLMKLPGEESFDQKLNQAINETSQEREFEALY  822 (1076)
T ss_pred             ceecHhHHHHHHhCcHHHHHHHhcCCCCCCCCCCChHHhHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            47999999999999999999998886552    35699999999999987653200  0  0    00  00    00  


Q ss_pred             ------HH-HHHHHHHHHHHH-HHhHcC----cEEEEE------EEEEEC---CEEEEEEEeEEeCCCCCCCCCcEEEee
Q 015510          171 ------IW-AVKLFNSITGVN-QLLFEG----LTRELP------ILGFIK---GVWMVGVIDEIQMPVKETARNPILVDT  229 (405)
Q Consensus       171 ------~w-a~klln~i~~l~-~L~~~G----~~REl~------V~G~i~---G~~v~GIIDeL~~~~~~~~~~l~I~D~  229 (405)
                            .+ ..++..++..+. .|...+    ...|..      +...++   .+.++|+|||||...++  +.++|+||
T Consensus       823 ~s~~r~~~~~~~l~~~~~~~~~~l~~~~~f~p~~~E~~fg~~~~~~~~l~~g~~v~L~GrIDRID~~~~~--~~lrVIDY  900 (1076)
T TIGR02774       823 QEDAEARYTLEILLDIARSTAPILRHNSAIQVIKEEENFGGKDNFQLQIDNGRSIFVRGIIDRIDRLSDG--GSLGVVDY  900 (1076)
T ss_pred             ccCHHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeecCCCCceeEEcCCCCEEEEeeEEeeeeccCCC--CcEEEEEe
Confidence                  01 111122222221 222222    344542      223343   28999999999986652  35999999


Q ss_pred             cccCCCCCCChhhccchhhHHHHHHHHHHHhhcC---CCCchhhhhhcC---CCCCCCCCHH-----HHHhhhcCCCCCC
Q 015510          230 KTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAAD---NFPSMQFYDFFS---LNSDCILSEE-----IIEKTSNAGFPAK  298 (405)
Q Consensus       230 KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~---~~~~~~~~~~~g---Ldpd~~~S~~-----~~~~~~~iGf~~~  298 (405)
                      |||++.. .-.....+-.+||++|-..+......   ..|.--|+=+..   ++.+...+++     +.....--|+   
T Consensus       901 KTG~~~~-~l~~~y~Gl~lQL~~Yl~a~~~~~~~~~~~~PaG~lY~~~~~P~i~~~~~~~~e~~e~~~~k~~k~~Gl---  976 (1076)
T TIGR02774       901 KSSATQF-DIPHFYNGLSPQLPTYLAALKRIAPHEGEQPIFGAMYLHMQEPVQDLMAVKNLDDAVVEASKALKYQGL---  976 (1076)
T ss_pred             CCCCCCC-CHHHhhcchhhHHHHHHHHHHHhHhhcCCCCcceEEEEEecCccccCCCCCCHHHHHHHHHHHhcCCce---
Confidence            9998631 11233567789999998776654211   123222221110   1112222222     1111222221   


Q ss_pred             CHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHHHHHH---HH-----HhhhhhhccccccCCCCCCC
Q 015510          299 TLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNS---QI-----EVCLEFWKGEREASFTPLED  370 (405)
Q Consensus       299 tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~---~l-----~~~~~fW~G~Re~~~V~~ee  370 (405)
                      -++|+++.+...+               ....       ...+++++++.   ++     +-+-+.-.|+=++.++.-..
T Consensus       977 ~l~d~~~~md~~~---------------~k~~-------s~~~t~eef~~L~~~~~~~i~~~~~~I~~G~i~i~P~~~~~ 1034 (1076)
T TIGR02774       977 FSEKEKSHLAEGY---------------NKNK-------ANLYSDEELQLLLDYNKYLYKKAAETILSGRFAINPYTEDG 1034 (1076)
T ss_pred             ehHHHHHHhhhhh---------------hhcc-------CCCCCHHHHHHHHHHHHHHHHHHHHHHhCCCcccCceecCC
Confidence            2334444333211               0011       23345555443   32     22335667888888766555


Q ss_pred             cccCCCCCCCCCCCCcCCC
Q 015510          371 RWKCRYCQFESVCPAVLKP  389 (405)
Q Consensus       371 ~~KCk~CeF~~~C~w~~~~  389 (405)
                      .. |.||+|+++|..-+..
T Consensus      1035 ~~-c~yC~y~~IC~FD~~l 1052 (1076)
T TIGR02774      1035 RS-VQGDQLKAITGFEADR 1052 (1076)
T ss_pred             cc-CCCCCCcCcCCCCCCC
Confidence            66 9999999999865544

DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RecAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. The partner may be designated AddB, as in Bacillus and in alphaproteobacteria, or RexB as in Streptococcus and Lactococcus. Note, however, that RexB proteins lack an N-terminal GxxGxGK[ST] ATP-binding motif found in Bacillus subtilis and related species, and this difference may be important; this model represents specifically RexB proteins as found in Streptococcus and Lactococcus.

>PHA01622 CRISPR-associated Cas4-like protein

Probab=99.29  E-value=1.4e-10  Score=109.62  Aligned_cols=181  Identities=18%  Similarity=0.279  Sum_probs=122.3

Q ss_pred             chHHHhhcCCCccccccCCccccccceeeeeecCCccc--cHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHH
Q 015510          102 SLLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKV--NKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNS  179 (405)
Q Consensus       102 Spl~rfr~k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~--t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~  179 (405)
                      |...+++ ++.+.||+|.   -|+++.||..--.....  ++.+..|..+|..+|+...+..                  
T Consensus        10 ~~~~~~~-~~~~~~t~~~---~C~rk~wl~~~i~~e~~~~~~~~~~G~~ihe~~~~~~~~~~------------------   67 (204)
T PHA01622         10 SFKVKYP-IDTLFPSEVG---ICYRKSYLARNIEFERGINEIYLDLGEQYHERIEQYFKEKL------------------   67 (204)
T ss_pred             HHHhhCc-CCcEeechhe---ecccHHHHhcccccccccCchHHHHHHHHHHHHHHHHHHHh------------------
Confidence            3344454 6789999985   69999999321122224  8899999999998887553211                  


Q ss_pred             HHHHHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHH
Q 015510          180 ITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDN  259 (405)
Q Consensus       180 i~~l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~  259 (405)
                                +...|.+|.+.++|+.+.|.||-|.  .+    .  |+|+||.+...   ......+++||.+|.+++..
T Consensus        68 ----------~~e~Ekei~~~i~~i~i~GkID~l~--~~----~--iiEvKsS~k~~---~~~~~~~~~Qla~Yl~~Lk~  126 (204)
T PHA01622         68 ----------NCQTEVEIKDEIEGIKISGRIDIVC--NN----D--LLEIKTISYNY---FQVKEYHLYQVALYYHILKK  126 (204)
T ss_pred             ----------CceeEEEEEEEECCEEEEEEEEEEe--CC----c--eEEEEecCCCC---CcccHhHHHHHHHHHHHHHH
Confidence                      2457888888899999999999998  22    2  89999987531   12256999999999999975


Q ss_pred             hhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeee
Q 015510          260 LAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKF  339 (405)
Q Consensus       260 L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f  339 (405)
                      +              |++..                                        ...+.|..+..   -....+
T Consensus       127 ~--------------Gi~v~----------------------------------------g~~l~~i~~k~---~~v~~~  149 (204)
T PHA01622        127 Q--------------NYQIN----------------------------------------NVYIVYLNRNT---REVKQF  149 (204)
T ss_pred             c--------------CCCCC----------------------------------------ceEEEEecCCC---CceeEE
Confidence            3              33221                                        22333433222   133356


Q ss_pred             ecCHHHHHHHHHh-------hhhhhccccccCCCCCCCcccCCCCCCCCCC
Q 015510          340 AFDYDLFNSQIEV-------CLEFWKGEREASFTPLEDRWKCRYCQFESVC  383 (405)
Q Consensus       340 ~yd~~~L~~~l~~-------~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C  383 (405)
                      ..+.+.++..+..       ..+++.|+-.|.. ++...|.|+.|+|.+.|
T Consensus       150 ~~~e~~le~~i~~I~~~i~~i~~~~~~~~~p~~-~~~~~~~C~~C~Y~e~C  199 (204)
T PHA01622        150 KIDEKVLETYYQKVIEWIKKFKEYLKETDYKKV-PGVNNYICKSCEFKQKC  199 (204)
T ss_pred             EcChHHHHHHHHHHHHHHHHHHHHhccCCCCCC-CCCCcCcCCCCCchhhh
Confidence            6676666654433       3445556555665 66678999999999999

>PHA00619 CRISPR-associated Cas4-like protein

Probab=99.28  E-value=1.4e-10  Score=109.27  Aligned_cols=176  Identities=19%  Similarity=0.163  Sum_probs=117.5

Q ss_pred             CCCccccccCCccccccceeeeeecCCcc----ccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHH
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSKK----VNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQ  185 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~~----~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~  185 (405)
                      ...+.||||.   -|+++.||....+...    ....|..|..+|..||+.+..                          
T Consensus        20 ~~~i~~sd~~---~CpRk~w~~~~~~~~~~~~~~~~~~~~G~~iHe~~~~~~~~--------------------------   70 (201)
T PHA00619         20 LQTIWVTELS---RCLRRSWLMRKNGGVKLALEEAMKMHIGSGLHMRLQRILKK--------------------------   70 (201)
T ss_pred             CCeEEeeehh---cCccHHHHHHhccccccccccchHHHhhHHHHHHHHHHHhh--------------------------
Confidence            3579999986   6999999998765433    467789999999999987642                          


Q ss_pred             HhHcCcEEEEEEEEEE-CCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCC
Q 015510          186 LLFEGLTRELPILGFI-KGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADN  264 (405)
Q Consensus       186 L~~~G~~REl~V~G~i-~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~  264 (405)
                         .+..||..|.-.+ .|..|.|+||-|+  .    ++..|+|+||.+....+. ....++++||.+|.+++.. ..| 
T Consensus        71 ---~sy~~e~~ve~~i~~~~~i~G~ID~i~--~----~~~~vvEiK~s~~~~~~~-~~~~~~~~QL~~Yl~lL~~-~~G-  138 (201)
T PHA00619         71 ---HGFETECRVERKTALGFEIVGKIDVYD--K----EENTIYELKYTHMDDLDK-GRLNNYLRQLNYYIEMANA-MAG-  138 (201)
T ss_pred             ---cCceeEEEEEEecccceEEEEEEEEEe--C----CCcEEEEEEccCCCcccc-cchHHHHHHHHHHHHHHHh-cCc-
Confidence               1233333222111 5888999999994  2    245999999977544321 2467999999999999876 111 


Q ss_pred             CCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHH
Q 015510          265 FPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYD  344 (405)
Q Consensus       265 ~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~  344 (405)
                                                                               .|.| ...++... ......+.+
T Consensus       139 ---------------------------------------------------------~l~~-~~~~rk~~-eV~~~~~~~  159 (201)
T PHA00619        139 ---------------------------------------------------------YLII-VHADGRVE-EIKRDWSET  159 (201)
T ss_pred             ---------------------------------------------------------EEEE-EcCCCceE-EeeccccHH
Confidence                                                                     1111 01111112 223567888


Q ss_pred             HHHHHHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCCCc
Q 015510          345 LFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCPAV  386 (405)
Q Consensus       345 ~L~~~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~w~  386 (405)
                      .|...+.+....=.....|.. +++..|+|++|.|++.|.||
T Consensus       160 ~l~~~i~~I~~ii~~~~~P~~-~~~~~~~C~~C~y~~~C~~~  200 (201)
T PHA00619        160 DLENRANAFGISVEENILPPK-KSKPDSECIECPFYNVCWKR  200 (201)
T ss_pred             HHHHHHHHHHHHHhcCcCCCC-CCCCcCcCCCCCCcccCCCC
Confidence            888877776666555555531 33458999999999999876

>TIGR02773 addB_Gpos ATP-dependent nuclease subunit B

Probab=99.14  E-value=1.3e-09  Score=125.32  Aligned_cols=149  Identities=17%  Similarity=0.129  Sum_probs=91.4

Q ss_pred             CCCccccccCCccccccceeeeeecCCccc----cHHHHHHHHHHHHHHHhhcccee--eee--ccch----------h-
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSKKV----NKVMKVGRARHAELEKEVTEKVK--VRV--RSTE----------D-  170 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~----t~am~~Gt~iH~~LE~e~~~~v~--v~i--~t~e----------d-  170 (405)
                      +-+.|||.|.++.-|+.+|++.+-.+.+++    =.++..|+.+|.+||..+.....  ...  .+.+          + 
T Consensus       780 ~l~~SvS~le~~~~Cpf~~F~~ygL~l~er~~~~l~~~~~G~~~H~~Le~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~  859 (1158)
T TIGR02773       780 TIQASVSRLEKYNACPFAHFAQYGLKLKERKIYKLEAPDLGQIFHEALKEISDELKEEDLDWSDLTKEQCRALANEAVEN  859 (1158)
T ss_pred             CcccChHHHHHHHhChHHHHHHHhcCCCcccccCCChhhhHHHHHHHHHHHHHHHHHcCCChHhcCHHHHHHHHHHHHHH
Confidence            458999999999999999999887766653    24689999999999997543211  110  0000          0 


Q ss_pred             -----------------HHHHHHHHHHHH----HHHHhHcC----cEEEEEE----------EEEE-CC--EEEEEEEeE
Q 015510          171 -----------------IWAVKLFNSITG----VNQLLFEG----LTRELPI----------LGFI-KG--VWMVGVIDE  212 (405)
Q Consensus       171 -----------------~wa~klln~i~~----l~~L~~~G----~~REl~V----------~G~i-~G--~~v~GIIDe  212 (405)
                                       ....+|..++..    |..-...|    ...|..+          .-.+ +|  +.++|+|||
T Consensus       860 ~~~~~~~~~~~~~~r~~~~~~rl~~~~~~~~~~l~~~~~~~~f~p~~~E~~Fg~~~~~~~~~~~~l~~g~~v~l~G~IDR  939 (1158)
T TIGR02773       860 LVPKIQHEILLSSKRYRYVQKRLKRIVTRAVKVLSEQAKRSKFVPVGLELGFGFGGNELPPLKLILKNGEELNLRGRIDR  939 (1158)
T ss_pred             HHHHhhhhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccceeeeeeecCCCCCCCCeeEEcCCCCEEEEEeEEcc
Confidence                             111222222221    11111122    5666633          1122 34  669999999


Q ss_pred             EeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHH
Q 015510          213 IQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDN  259 (405)
Q Consensus       213 L~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~  259 (405)
                      ||...++.+.-+.||||||+... +.-.....+-.+||.+|-..+..
T Consensus       940 iD~~~~~~~~y~~iIDYKsg~~~-~~l~~~~~Gl~lQLl~Yl~~~~~  985 (1158)
T TIGR02773       940 VDKAEKEDETYLRIIDYKSSSKK-LDLTEVYYGLALQMLTYLDIVLT  985 (1158)
T ss_pred             eeccccCCceEEEEEEECCCCCC-cCHHHHhccHHHHHHHHHHHHHH
Confidence            99876421223479999999853 22234567889999999644443

DNA repair is accomplished by several different systems in prokaryotes. Recombinational repair of double-stranded DNA breaks involves the RecBCD pathway in some lineages, and AddAB (also called RexAB) in other. The AddA protein is conserved between the firmicutes and the alphaproteobacteria, while the partner protein is not. Nevertheless, the partner is designated AddB in both systems. This model describes the AddB protein as found Bacillus subtilis and related species. Although the RexB protein of Streptococcus and Lactococcus is considered to be orthologous, functionally equivalent, and merely named differently, all members of this protein family have a P-loop nucleotide binding motif GxxGxGK[ST] at the N-terminus, unlike RexB proteins, and a CxxCxxxxxC motif at the C-terminus, both of which may be relevant to function.

>PF01930 Cas_Cas4: Domain of unknown function DUF83; InterPro: IPR022765 This entry represents an uncharacterised domain found in several proteins, including DNA replication helicase Dna2, clustered regularly interspaced short palindromic repeats (CRISPR)-associated exonuclease Cas4 and putative RecB family exonuclease proteins

Probab=99.11  E-value=4.8e-10  Score=100.76  Aligned_cols=156  Identities=21%  Similarity=0.367  Sum_probs=104.8

Q ss_pred             cccccCCccccccceeeeeecCCcc--ccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHHHhHcCc
Q 015510          114 SVTDVTDTEWCEKKMEFNLLFGSKK--VNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGL  191 (405)
Q Consensus       114 SVTdL~~~~WCElq~~Y~l~~g~~~--~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~L~~~G~  191 (405)
                      ++|++..+..|+++.||... +...  .+..|..|..+|+.-...                                  .
T Consensus         1 t~s~v~~y~~CpR~~~l~~~-~~~~~~~~~~~~~G~~~h~~~~~~----------------------------------~   45 (162)
T PF01930_consen    1 TGSMVNEYVYCPRRAYLERV-GIEPEEPTESMELGRELHEERYER----------------------------------E   45 (162)
T ss_pred             CHHHhhHHHHccHHHHHHHc-CCcccCCHhHHHhhHHhhhhhhhh----------------------------------c
Confidence            47888899999999999998 4332  467899999999911110                                  1


Q ss_pred             EEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCCCCchhhh
Q 015510          192 TRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFY  271 (405)
Q Consensus       192 ~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~  271 (405)
                      .+|+.| ..      .|+||.|....    +.+.++++|++...       ...+++||.+|.++|+.+           
T Consensus        46 ~~~v~v-s~------~G~iD~v~~~~----~~~~~~E~K~~~~~-------~~~~~~Ql~~Y~~lL~~~-----------   96 (162)
T PF01930_consen   46 KREVPV-SE------SGKIDIVEKGG----GEIIPVEIKSGRKP-------REEHRMQLAAYALLLEEF-----------   96 (162)
T ss_pred             ceeecc-CC------cEEEEEEEEeC----CEEEEEEEecCCCC-------cchhHHHHHHHHHHHHhc-----------
Confidence            144444 11      99999999443    48999999998875       457799999999999832           


Q ss_pred             hhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHHHH---HH
Q 015510          272 DFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLF---NS  348 (405)
Q Consensus       272 ~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L---~~  348 (405)
                         |++..                                        .-.|.|...+.     .....++++..   ..
T Consensus        97 ---g~~v~----------------------------------------~G~i~y~~~~~-----~~~v~~~~~~~~~v~~  128 (162)
T PF01930_consen   97 ---GIPVK----------------------------------------RGYIYYIEDRK-----RVRVEITEELRRKVEK  128 (162)
T ss_pred             ---Cccce----------------------------------------eEEEEEecCCe-----EEEEeCCHHHHHHHHH
Confidence               33221                                        23555554332     22455665443   34


Q ss_pred             HHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCC
Q 015510          349 QIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       349 ~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~  384 (405)
                      .++..-+.=.|+..|.   +....||..|.|++.|.
T Consensus       129 ~i~~i~~~~~~~~~P~---~~~~~~C~~C~y~~~C~  161 (162)
T PF01930_consen  129 LIEEIRKILEGESPPP---PENSKKCRRCSYREFCW  161 (162)
T ss_pred             HHHHHHHHHhCCCcCC---CCCCCCCCCCCCcCcCC
Confidence            4555555555554443   34566999999999996

>TIGR02786 addB_alphas double-strand break repair protein AddB, alphaproteobacterial type

Probab=99.07  E-value=3.3e-10  Score=128.72  Aligned_cols=144  Identities=17%  Similarity=0.120  Sum_probs=95.9

Q ss_pred             CCCccccccCCccccccceeeeeecCCccc------cHHHHHHHHHHHHHHHhhccce-eee------e--------cc-
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSKKV------NKVMKVGRARHAELEKEVTEKV-KVR------V--------RS-  167 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~------t~am~~Gt~iH~~LE~e~~~~v-~v~------i--------~t-  167 (405)
                      ..++|||.|.++.-|+++||+++..|.+..      -.++..|+.+|++||+.+.... ...      +        .. 
T Consensus       746 ~~~~SvS~le~~~~cPy~~fary~L~L~~~~~~~~~~~a~~~G~l~H~vLe~f~~~~~~~~~~~~~~~l~~~~~~~~~~~  825 (1021)
T TIGR02786       746 PRHFSVTEIETLRRDPYAIYARHILKLRPLDPLDRDPEAADRGTLIHDILERFVREYPDPLPADAADALRKIGRAEFASL  825 (1021)
T ss_pred             cCCcCHHHHHHHHhChHHHHHHHhcCCCCCCCCCCCCCHHHhhHHHHHHHHHHHHhccccCCchHHHHHHHHHHHHHHHh
Confidence            457999999999999999999999887752      4689999999999998765421 100      0        00 


Q ss_pred             -----chhHHHHHHHHHHHHH---HHHhHcC---cEEEEEEEEEE---CCEEEEEEEeEEeCCCCCCCCCcEEEeecccC
Q 015510          168 -----TEDIWAVKLFNSITGV---NQLLFEG---LTRELPILGFI---KGVWMVGVIDEIQMPVKETARNPILVDTKTRA  233 (405)
Q Consensus       168 -----~ed~wa~klln~i~~l---~~L~~~G---~~REl~V~G~i---~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~  233 (405)
                           ....|..++..++...   ++-...+   ...|+...-.+   +|+.|+|.||||+..++   +.+.|+|||||+
T Consensus       826 ~~~~~~~~l~~~R~~~~~~~~l~~e~~r~~~f~~~~~E~~~~~~l~~~~~i~L~GriDRID~~~d---g~~~IIDYKTG~  902 (1021)
T TIGR02786       826 NLPPTAEALWWPRFARAADWFADWERARRLDVRRIFAEARGRKELVGERGFTLSGRADRIDRTPD---GSAAILDYKTGA  902 (1021)
T ss_pred             cCChHHHHHHHHHHHHHHHHHHHHHHhhccCCCcceEeeecceeeccCCceEEEEEEEEEEEcCC---CCEEEEEeCCCC
Confidence                 0112323332222111   1111111   22344433222   48999999999998765   489999999998


Q ss_pred             CCCCCChh-hccchhhHHHHHHHHHHH
Q 015510          234 QYTLPAES-QKRNGRLQLMCYKYMWDN  259 (405)
Q Consensus       234 ~~~lP~~~-~~~~~~lQLmlY~~ll~~  259 (405)
                      .+   +.. ...+-..||.+|..++..
T Consensus       903 ~p---~~~~~~~g~~~QL~lya~~~~~  926 (1021)
T TIGR02786       903 PP---SGKQVRAGLSPQLALEAALLMR  926 (1021)
T ss_pred             CC---ChHhhhcchhhHHHHHHHHHHc
Confidence            63   433 367889999999988876

AddAB is a system well described in the Firmicutes as a replacement for RecBCD in many prokaryotes for the repair of double stranded break DNA damage. More recently, a distantly related gene pair conserved in many alphaproteobacteria was shown also to function in double-stranded break repair in Rhizobium etli. This family consists of AddB proteins of the alphaproteobacteial type.

>COG2887 RecB family exonuclease [DNA replication, recombination, and repair]

Probab=99.01  E-value=2e-09  Score=105.74  Aligned_cols=136  Identities=20%  Similarity=0.118  Sum_probs=87.7

Q ss_pred             ccccccCCccccccceeeeeecCCcc------ccHHHHHHHHHHHHHHHhhccceeeee---------------------
Q 015510          113 LSVTDVTDTEWCEKKMEFNLLFGSKK------VNKVMKVGRARHAELEKEVTEKVKVRV---------------------  165 (405)
Q Consensus       113 LSVTdL~~~~WCElq~~Y~l~~g~~~------~t~am~~Gt~iH~~LE~e~~~~v~v~i---------------------  165 (405)
                      ||||.+.+..-|++.++++-+.+.+.      ..++...|+.+|+.+|....+ +....                     
T Consensus         1 ls~s~~~~l~r~p~~~~a~~i~~l~~~~~~~e~~~~~~~g~~~h~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~   79 (269)
T COG2887           1 LSVSRAEALRRCPYLFYARRILALPPLGTRAEEPEAAVRGTLLHAILEALVGE-RYHAAAAALAKLAWLLRKELAEAELP   79 (269)
T ss_pred             CchhhhhhhccCcHHHHHHHHhccCCCCcccccccccccccHHHHHHHHHhhc-cccccchhHHHHhhhhhhhhhhhhcc
Confidence            68899999999999999988876554      356677899999999998853 21110                     


Q ss_pred             ccchhHHHHHHHHHHHHHHH--HhH-cC------cEEEEEEEEEECC-EEEEEEEeEEeCCCCCCCCCcEEEeecccCCC
Q 015510          166 RSTEDIWAVKLFNSITGVNQ--LLF-EG------LTRELPILGFIKG-VWMVGVIDEIQMPVKETARNPILVDTKTRAQY  235 (405)
Q Consensus       166 ~t~ed~wa~klln~i~~l~~--L~~-~G------~~REl~V~G~i~G-~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~  235 (405)
                      ...++.|..++.-+...+..  +.. .+      .+-+..+...++| +.++|+||||+..+.   +++.|+|||||+.+
T Consensus        80 ~~~~~~~~~r~~~~~~~~~~~~~e~~r~~~~~~~~~e~~~~~~~i~~~i~l~G~aDRid~~~~---g~i~ilDYKTG~~p  156 (269)
T COG2887          80 GYTDAEWLDRLRARARAFLVYDWERERGTAFHAWLEEERGAELLIDGGIRLRGRADRIDKDAD---GELEILDYKTGKSP  156 (269)
T ss_pred             cccCchhHHHHHHhHHhhcchhHHHhccccceeeeeEeecceeEecccceecceecccccCCC---CcEEEEEeecCCCC
Confidence            01124565566554443322  333 22      2222224445655 999999999999987   48999999999986


Q ss_pred             CCCChhhccchhhHHHHHH
Q 015510          236 TLPAESQKRNGRLQLMCYK  254 (405)
Q Consensus       236 ~lP~~~~~~~~~lQLmlY~  254 (405)
                      +.-..  .....-|+.+|.
T Consensus       157 ~~a~~--~~~~~~ql~~~~  173 (269)
T COG2887         157 SAARA--PAAVSPQLALEA  173 (269)
T ss_pred             chhcc--hhhcCcchHHHH
Confidence            32222  333344555554

>PF12684 DUF3799: PDDEXK-like domain of unknown function (DUF3799); InterPro: IPR024432 This entry represents a PDDEXK-like domain of unknown function found in proteins from bacteria and viruses

Probab=98.56  E-value=1.4e-07  Score=91.32  Aligned_cols=140  Identities=22%  Similarity=0.181  Sum_probs=88.8

Q ss_pred             CccccccCCccccccceeeeeecCCcc---ccHHHHHHHHHHHHHHHh-hccceee------------eeccchh-HHHH
Q 015510          112 ALSVTDVTDTEWCEKKMEFNLLFGSKK---VNKVMKVGRARHAELEKE-VTEKVKV------------RVRSTED-IWAV  174 (405)
Q Consensus       112 ~LSVTdL~~~~WCElq~~Y~l~~g~~~---~t~am~~Gt~iH~~LE~e-~~~~v~v------------~i~t~ed-~wa~  174 (405)
                      .+|+|.|...+-||-.+.=. +.|...   .|.||..|+.+|..||-+ +|+...+            .+.++.+ .-|.
T Consensus         2 y~S~Sq~K~f~~ceA~~~A~-l~g~~~~~~~t~All~Gs~vH~~~E~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~a~   80 (237)
T PF12684_consen    2 YMSVSQFKDFLECEARALAK-LNGEWEPEEDTTALLVGSYVHSYFEPEEFHDEFIEEHPEMFSKRGKKKGILKAEFKTAE   80 (237)
T ss_dssp             -EEHHHHHHHHH-HHHHHHH-CTTS-------CHHCHHHHHHHHCCCHHHCHHHHHH-GGGB-----TTSSB-HHCCHHH
T ss_pred             CccHHHHhHHhcCHHHHHHH-hcCCccCCCCCcHHHhhhHHHHHhcCcchHHHHHHhhHHHHhhhcccccccHHHHHHHH
Confidence            47999999999999855433 345333   689999999999998873 3322111            0111211 1144


Q ss_pred             HHHHHHHH---HHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh----------h
Q 015510          175 KLFNSITG---VNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE----------S  241 (405)
Q Consensus       175 klln~i~~---l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~----------~  241 (405)
                      ++.+.+..   ...|+. | .+|+.++|.+.|+...|.||-+.....      +|+|+||-+... |..          .
T Consensus        81 ~Mi~~l~~~~~~~~ll~-G-ekev~~~~e~~Gv~~K~R~D~l~~~~~------~ivDlKTt~d~~-~~~~~~~~~~~~~~  151 (237)
T PF12684_consen   81 KMIEALKADPLFMELLQ-G-EKEVIWTDEITGVPCKCRPDCLNPDRG------YIVDLKTTADIS-PKYWNENEGRFVRF  151 (237)
T ss_dssp             HHHHHHCTSHHHHHHCT-S-CEEEEEEECCTTEEEEEEECEEECCCC------EEEEEEEES-CC---EEETTTEHCCHH
T ss_pred             HHHHHHHcCHHHHHHHh-C-ceEEEEEEeeCCeEEEEEeEEEecCCC------ceEEeeecccCc-cccccccccHHHHH
Confidence            55444422   234445 6 899999999999999999999986532      678999998643 111          1


Q ss_pred             -hccchhhHHHHHHHHHHHhh
Q 015510          242 -QKRNGRLQLMCYKYMWDNLA  261 (405)
Q Consensus       242 -~~~~~~lQLmlY~~ll~~L~  261 (405)
                       ..-.-.+|+.+|..++....
T Consensus       152 i~~~~Y~~Q~A~Y~e~~~~~~  172 (237)
T PF12684_consen  152 IENYGYHLQAAFYQEGLRQNT  172 (237)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHcCcHHHHHHHHHHHHHHh
Confidence             12345699999999988764

Many of these proteins are annotated as exodeoxyribonuclease 8, which is involved in the RecE pathway of recombination. The PD-(D/E)XK domain is ubiquitously found in enzymes involved in metabolism of nucleic acids, mostly in nucleases []. ; PDB: 3L0A_A 3H4R_A.

>COG3857 AddB ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]

Probab=98.47  E-value=1e-06  Score=98.58  Aligned_cols=154  Identities=19%  Similarity=0.170  Sum_probs=96.4

Q ss_pred             hhcCCCccccccCCccccccceeeeeecCCccc----cHHHHHHHHHHHHHHHhhccceee----eeccc----------
Q 015510          107 FRKNRALSVTDVTDTEWCEKKMEFNLLFGSKKV----NKVMKVGRARHAELEKEVTEKVKV----RVRST----------  168 (405)
Q Consensus       107 fr~k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~----t~am~~Gt~iH~~LE~e~~~~v~v----~i~t~----------  168 (405)
                      |-.+-.+|||.|..+.-||.+|+-.+..|.+++    -.+...|...|.++|+-..+....    ...+.          
T Consensus       746 yG~~l~~SVSrlE~f~~Cpf~yf~~ygL~Lker~~~~l~~~dlG~~fH~v~e~i~e~~~~~~~d~~~l~~~~~~~l~~~i  825 (1108)
T COG3857         746 YGEELYLSVSRLEKFYRCPFSYFLEYGLGLKERKDIHLDARDLGNFFHRVFERISEEENLENQDWNFLNEEDCERLTQKI  825 (1108)
T ss_pred             cCCceEeehHHHHHHHcCcHHHHHHHhhcccceeccCCCchhHHHHHHHHHHHHHHhhhhccCCcccccHHHHHHHHHHH
Confidence            334557999999999999999998888887763    467899999999999876532211    00000          


Q ss_pred             hh-----------------HH-HHHHHHHHHHHHHHhH-cCcEEEEEEEE----------------EEC--CEEEEEEEe
Q 015510          169 ED-----------------IW-AVKLFNSITGVNQLLF-EGLTRELPILG----------------FIK--GVWMVGVID  211 (405)
Q Consensus       169 ed-----------------~w-a~klln~i~~l~~L~~-~G~~REl~V~G----------------~i~--G~~v~GIID  211 (405)
                      .+                 .| ..+|...+..-.+.+. ++..-++...|                .-+  .+.++|+||
T Consensus       826 ~~~~~~~~~~~il~ss~r~~y~~~kL~~Ivr~t~~iL~e~~~~~~f~pi~~E~~Fglk~~~~~~i~l~~g~~i~l~GrID  905 (1108)
T COG3857         826 VEVLLEKEQEQILLSSARYEYTLEKLEDIVRRTATILAEQAKFSDFEPIGEEASFGLKGLPPLTIGLPSGSEILLRGRID  905 (1108)
T ss_pred             HHHhhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhccccccceechhhhccCCCCCCcceecCCCCCeEEEEeeee
Confidence            00                 11 2223333322222222 22222222211                112  389999999


Q ss_pred             EEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcC
Q 015510          212 EIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAAD  263 (405)
Q Consensus       212 eL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~  263 (405)
                      |||....  ++-+.|+|||++.. ..--...-.+=.+|||.|=-++.+-...
T Consensus       906 RID~~~~--~~~l~IvDYKSsa~-~f~l~~vYyGL~lQlmTYLdai~q~~~~  954 (1108)
T COG3857         906 RIDQLEK--DGYLGIVDYKSSAH-QFDLTDVYYGLSLQLMTYLDAIKQNAPE  954 (1108)
T ss_pred             hhhhhcc--CCceEEEEeccccc-ccchhhhccchhHHHHHHHHHHHHhhhh
Confidence            9999876  34799999999443 3333345677789999997666665444

>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type

Probab=98.17  E-value=6.9e-06  Score=94.84  Aligned_cols=117  Identities=16%  Similarity=0.207  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHHHHHhhccceee-e--e----------ccch--hHHHHHHHHHHHH--HHHHhHcCcEEEEEEEEEE--
Q 015510          141 KVMKVGRARHAELEKEVTEKVKV-R--V----------RSTE--DIWAVKLFNSITG--VNQLLFEGLTRELPILGFI--  201 (405)
Q Consensus       141 ~am~~Gt~iH~~LE~e~~~~v~v-~--i----------~t~e--d~wa~klln~i~~--l~~L~~~G~~REl~V~G~i--  201 (405)
                      .++..|+.+|..||..-...... .  .          ....  +.+...+..++..  +..++..+...|+++.|.+  
T Consensus       984 ~a~~~G~~iH~lLe~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~E~~~~~~~~~ 1063 (1141)
T TIGR02784       984 FALRRGTLLHRLLQHLPDLAPEEREDAARRYLARSAADWPEAEREKLLAAVLAVLDDPRLAPVFAEGSRAEVAIMGTLKI 1063 (1141)
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHcCcccHhhcCCCcceeeeeeceecc
Confidence            58999999999999853211000 0  0          0000  1122222222221  3344545667799999976  


Q ss_pred             --CCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChh-hccchhhHHHHHHHHHHHhhc
Q 015510          202 --KGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAES-QKRNGRLQLMCYKYMWDNLAA  262 (405)
Q Consensus       202 --~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~-~~~~~~lQLmlY~~ll~~L~~  262 (405)
                        .++.++|+||+|...++    ++.|+||||+..+. +... .......||.+|+.++..+..
T Consensus      1064 ~~~~~~~~g~iDRl~~~~~----~~~IiDYKT~~~~~-~~~~~~~~~y~~QL~~Y~~~~~~~~p 1122 (1141)
T TIGR02784      1064 GGQELAVSGQIDRLAVDDN----RVLIVDYKTNRPVP-ATPEEVPPAYLRQLALYRALLEPLYP 1122 (1141)
T ss_pred             CCCceeEEEEEEEEEeeCC----EEEEEEcCCCCCCC-CChhhhhhHHHHHHHHHHHHHHHHcC
Confidence              24689999999999864    79999999998631 1222 345688999999999988753

AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the alphaproteobacteria (as modeled here) and the Firmicutes, while the partner AddB proteins show no strong homology across the two groups of species.

>COG1468 CRISPR-associated protein Cas4 (RecB family exonuclease) [Defense mechanisms]

Probab=98.14  E-value=1.4e-05  Score=75.16  Aligned_cols=167  Identities=19%  Similarity=0.357  Sum_probs=103.0

Q ss_pred             CCccccccCCccccccceeeeeecCCccc----cHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHHH
Q 015510          111 RALSVTDVTDTEWCEKKMEFNLLFGSKKV----NKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQL  186 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq~~Y~l~~g~~~~----t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~L  186 (405)
                      ..++++++..+.+|+++.||....+-...    +..+..|..+|..+|....+.-++                       
T Consensus        14 ~~i~~~~v~~y~~Cprk~w~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~v-----------------------   70 (190)
T COG1468          14 MRITGSDVNEYLYCPRKLWLFSRGGPEESPEVYSEGVELGKLIHEKLEKFLRDEKEV-----------------------   70 (190)
T ss_pred             eeecHHHHHHHHhcCHHHHHHHhcCccccchhcchhhhhhHHHHHHHHHHhcccccc-----------------------
Confidence            46899999999999999999987554433    466778888888887733222111                       


Q ss_pred             hHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCCCC
Q 015510          187 LFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFP  266 (405)
Q Consensus       187 ~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~  266 (405)
                                   .++|.++  .||-|....+. -..-.++++|+++...-.      .+++||.+|-++++.       
T Consensus        71 -------------~l~~~~i--~~d~lk~~~~~-~~~~~~vEiK~~~~~~~~------~~~~Ql~~ylyl~e~-------  121 (190)
T COG1468          71 -------------ELEGEWI--KIDFLKGRMDL-EVKDVVVEIKKSKKMEKA------PHKLQLAYYLYLEEK-------  121 (190)
T ss_pred             -------------eecceee--eeeeeccccee-eccceeEEEecCcCcccc------hHHHHHHHHHHHHHh-------
Confidence                         1222222  45555444320 001268999999875311      189999888777763       


Q ss_pred             chhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHHHH
Q 015510          267 SMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLF  346 (405)
Q Consensus       267 ~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L  346 (405)
                             +|...+                                        .-.|.|-..+     ......++++..
T Consensus       122 -------~g~~v~----------------------------------------~g~i~Y~~~~-----k~~~Vei~~~~~  149 (190)
T COG1468         122 -------LGIAVA----------------------------------------KGYIYYPKLK-----KRVEVELTEELR  149 (190)
T ss_pred             -------hCceee----------------------------------------eEEEEecccC-----cEEEEEeCHHHH
Confidence                   233221                                        3344554433     223455555444


Q ss_pred             H---HHHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCC
Q 015510          347 N---SQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       347 ~---~~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~  384 (405)
                      +   ..+...-..-.|.   .++++...++|++|.|+..|.
T Consensus       150 e~v~~~~~ei~~ile~~---~~p~~~~~~~C~~C~y~~iC~  187 (190)
T COG1468         150 EEVERVLKEIEEILEGG---KPPPPKKKKKCKKCAYREICF  187 (190)
T ss_pred             HHHHHHHHHHHHHHhCC---CCCCCCCCCcCCCCCcceecc
Confidence            3   4555555666665   334556799999999999996

>TIGR01896 cas_AF1879 CRISPR-associated protein, Csa1 family

Probab=97.83  E-value=0.00032  Score=69.34  Aligned_cols=200  Identities=19%  Similarity=0.212  Sum_probs=112.3

Q ss_pred             CCccccccCCccccccce--eeeeecCCcc-ccHHHHHHHHHHHHHHHhhcccee-----eee------ccchhH-HHHH
Q 015510          111 RALSVTDVTDTEWCEKKM--EFNLLFGSKK-VNKVMKVGRARHAELEKEVTEKVK-----VRV------RSTEDI-WAVK  175 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq~--~Y~l~~g~~~-~t~am~~Gt~iH~~LE~e~~~~v~-----v~i------~t~ed~-wa~k  175 (405)
                      -+|||+|++ ..-||-.=  |.+...|.+. ++.+|..|..||+++=.-+.+.-.     .+.      ...+.. -+..
T Consensus        33 ~~l~v~dva-~~yCpt~RdvyLrrv~~~r~~~~~~~~~G~~iH~~~~~~~~~~~~~i~~g~~~~~~~~~~~~~~~~~~~~  111 (271)
T TIGR01896        33 LGLSLSDVA-YGYCPTGRDVYLKRVLGIRGEVRGLLVLGQAIHEAFLKALEEVRKLIYSGYDMFSVLLRSFRAREFCAKE  111 (271)
T ss_pred             CCCCHHHHc-cCCCCCcchhhhhhhhccccCcchhhHhhHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH
Confidence            489999998 56788553  4443445443 599999999999987766543110     000      001111 1222


Q ss_pred             HHHHHHH-----HHHHhHc--------------CcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCC
Q 015510          176 LFNSITG-----VNQLLFE--------------GLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYT  236 (405)
Q Consensus       176 lln~i~~-----l~~L~~~--------------G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~  236 (405)
                      ++.++..     +...+..              ....|..|-|..=|.-=.=..|-..+.      ...++|+|+++.. 
T Consensus       112 ~~~~~~~~~~~~~~~v~~~~~~~~~~s~~~~~~P~~~E~~vDGs~lGLs~~l~~Da~~~~------~~~pVEyK~G~~~-  184 (271)
T TIGR01896       112 LWKYGVEIYSAVMAYVFEKASFFSADSLVFLVIPVAVEYNVDGSPLGLSDRLRVDALVGI------LPVVVEMKVGSYQ-  184 (271)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccccchhhhhccceEEEeccCCccccCccccccchhhcc------cceeEEEecCCCC-
Confidence            2332221     1111111              134444444433331100123332222      3579999999732 


Q ss_pred             CCChhhccchhhHHHHHHHHHHHhhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCC
Q 015510          237 LPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPA  316 (405)
Q Consensus       237 lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~  316 (405)
                             ..+++|+-.|++++++.             ||...+                                     
T Consensus       185 -------~~hklQLaaYALllEe~-------------yg~pVd-------------------------------------  207 (271)
T TIGR01896       185 -------ERHELALAGYALAIEAD-------------LEVPVD-------------------------------------  207 (271)
T ss_pred             -------chhHHHHHHHHHHHHHH-------------HCCCCc-------------------------------------
Confidence                   38899999999999987             454333                                     


Q ss_pred             CCCceEEEEEEccCCCeeeeeeeecCHHHHHH---HHHhhhhhhccccccCCCCCCCcccCC-CCCCCCCC
Q 015510          317 SHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNS---QIEVCLEFWKGEREASFTPLEDRWKCR-YCQFESVC  383 (405)
Q Consensus       317 ~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~---~l~~~~~fW~G~Re~~~V~~ee~~KCk-~CeF~~~C  383 (405)
                         .-.|.|...++......+.+.+|++..+.   .+..+.+-=..++.|..     .-||. .|.|+..|
T Consensus       208 ---~G~I~y~~~~~r~~~~~~~V~I~d~LR~~v~e~~dei~~iI~~g~~P~p-----s~KC~~~C~f~~vC  270 (271)
T TIGR01896       208 ---YGLLVYVNVNDGVEIKARLVYISDDLRTEFLERRDEAIRIIEYGSDPGL-----PPKCPPTCPFLEHC  270 (271)
T ss_pred             ---ceeEEEEeeccccccceEEEECCHHHHHHHHHHHHHHHHHHhCCCCCCC-----cccccCCCCCcCcc
Confidence               23556655444333344567777665544   44466666666677764     22996 99999999

CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model describes a particularly strongly conserved family found so only in the APERN subtype of CRISPR/Cas loci and represented by AF1879 from Archaeoglobus fulgidus. This family has four perfectly preserved Cys residues. This subfamily is found in a CRISPR/Cas locus we designate APERN, so the family is designated Csa1, for CRISPR/Cas Subtype Protein 1.

>KOG4760 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.71  E-value=3.7e-07  Score=90.19  Aligned_cols=178  Identities=19%  Similarity=0.089  Sum_probs=129.6

Q ss_pred             CCCcCCC---CCcchhhhhhccccceeeeecccccccCCCCCCchhhcccccccccccCCCCchHHHhhcCCCccccccC
Q 015510           43 PRCCSPS---SSLSFASQLQRNARFIHSISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIAKSLLDRFRKNRALSVTDVT  119 (405)
Q Consensus        43 ~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~died~~~~~~~~~~~~~~~Spl~rfr~k~~LSVTdL~  119 (405)
                      -++...+   .++++-..+|+....|++|+.+|||+|+.|.  +|+.               ++..+||+...+-|||+.
T Consensus        70 ~H~~yl~Vtdlvsp~wce~q~sy~l~r~i~~~s~~kl~~g~--~ih~---------------~~e~e~~~~~~~~Vtd~t  132 (365)
T KOG4760|consen   70 FHSIYLSVTDLVSPSWCEAQGSYELIRSITLFSKRKLSAGA--SIHE---------------SYEHEFRRNQTLGVTDLT  132 (365)
T ss_pred             HhcccchhhhccchhhhccCCccchhhhhcccchhhhhccc--cHHH---------------HHHhhccCcccccccccc
Confidence            3454444   7888889999999999999999999999998  8874               467999988899999999


Q ss_pred             CccccccceeeeeecCCccccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHHHhHcCcEEEEEEEE
Q 015510          120 DTEWCEKKMEFNLLFGSKKVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLFEGLTRELPILG  199 (405)
Q Consensus       120 ~~~WCElq~~Y~l~~g~~~~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~L~~~G~~REl~V~G  199 (405)
                      .    +.+..+-.+.+......+|..|...|--+|.+....|.|.....++.+                  .++|+.--|
T Consensus       133 ~----~wa~~~lr~l~~i~~lq~~g~~refpv~ge~e~v~~vgVidE~~~~~f------------------~~lel~~lk  190 (365)
T KOG4760|consen  133 G----AWAIKFLRILLLIPTLQSEGHIREFPVFGEGEGVLLVGVIDELHYTAF------------------GELELAELK  190 (365)
T ss_pred             c----HHHHHHHHHHhhhhhhhhcCccceeeeccccceeEEEEEEeehhhhhh------------------hhhHHhhhc
Confidence            8    556665554444445677999999999999998877766554444422                  455666678


Q ss_pred             EECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCC
Q 015510          200 FIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADN  264 (405)
Q Consensus       200 ~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~  264 (405)
                      +..|-++-|++|.++-.-.. ..-..+.|-|    ...|-.++...+..|||+|+.+|+......
T Consensus       191 tr~~~~~pg~~q~l~~~~q~-~~y~~~f~~~----~q~~~~p~s~~~~~kL~l~k~lw~~vl~~~  250 (365)
T KOG4760|consen  191 TRRRPMLPGEAQKLKDCFQV-SLYKYIFDAM----VQGKVTPASLIHHTKLCLEKPLWPSVLRHA  250 (365)
T ss_pred             cccccccccHHHHHHHHHHH-HHHHhhhHHH----hcccCccccccchhhhhhhhhhhHHHHHhh
Confidence            88899999999998753110 0011223322    223344567889999999999998876653

>PRK13909 putative recombination protein RecB; Provisional

Probab=97.58  E-value=0.00021  Score=81.03  Aligned_cols=107  Identities=21%  Similarity=0.192  Sum_probs=71.7

Q ss_pred             cHHHHHHHHHHHHHHHhhccce-eee------------eccc--hhHHHHHHHHHHH--HHHHHhHc-CcEEEEEEEEEE
Q 015510          140 NKVMKVGRARHAELEKEVTEKV-KVR------------VRST--EDIWAVKLFNSIT--GVNQLLFE-GLTRELPILGFI  201 (405)
Q Consensus       140 t~am~~Gt~iH~~LE~e~~~~v-~v~------------i~t~--ed~wa~klln~i~--~l~~L~~~-G~~REl~V~G~i  201 (405)
                      ..++..|..+|..||..-.-.. +.+            ....  .+.+..++..++.  .+..++.. ..-.|.++.+  
T Consensus       764 ~~~~~~G~~lH~~Le~l~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~l~~~v~~~l~~~~~~~~f~~~~~~~E~~i~~--  841 (910)
T PRK13909        764 LEAIYFGIALHYCLEMLYAFKIENLEVLKNLLKNRYGHFLDESDLEDLEKRLELLINNKEFQALLKDGKLLKEQALLF--  841 (910)
T ss_pred             HHHHHHHHHHHHHHHhCcccChhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHHHcCHHHHHHhccCceeeeeeecc--
Confidence            3579999999999998753110 100            0011  1233344444444  24456653 3678999865  


Q ss_pred             CCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhh
Q 015510          202 KGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLA  261 (405)
Q Consensus       202 ~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~  261 (405)
                      +|  ..|+||+|...++    +++|+||||+..+       .....-||..|+.++....
T Consensus       842 ~g--~~~riDrl~~~~~----~v~IiDYKTg~~~-------~~~y~~Ql~~Y~~~L~~~~  888 (910)
T PRK13909        842 NG--ELKQIDLLLEKDE----EICVIDYKSSKKY-------QEEHKAQVSHYKEAIKEIL  888 (910)
T ss_pred             CC--ccccceEEEEcCC----EEEEEEECCCCCC-------hHHHHHHHHHHHHHHHHHc
Confidence            67  5699999998654    7999999999743       2467899999999996553

>TIGR03491 RecB family nuclease, putative, TM0106 family

Probab=97.46  E-value=0.0018  Score=68.16  Aligned_cols=188  Identities=13%  Similarity=0.099  Sum_probs=105.5

Q ss_pred             ccccccCCccccccceeeeeecCCc----cccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHHHhH
Q 015510          113 LSVTDVTDTEWCEKKMEFNLLFGSK----KVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQLLF  188 (405)
Q Consensus       113 LSVTdL~~~~WCElq~~Y~l~~g~~----~~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~L~~  188 (405)
                      +|.++|....-|+++.+.+.....+    .....++.=... ..-|..+               -.++......-..++.
T Consensus         1 ~~~~~l~~~~~C~~r~~ld~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~---------------~~~~~~~~~~T~~am~   64 (457)
T TIGR03491         1 ITDSDLLSFLRCRRRAWLDLYGDKQQKEAPPDFLLQLRQDK-QAFVQLI---------------LEDPAARAEAGLDACA   64 (457)
T ss_pred             CCHHHHHHHhcCChHHHHhhcCCcccCCCCccHHHHHHHHH-HHHHHHH---------------HHhHHHHHHHHHHHHh
Confidence            5789999999999999998764211    112222111111 1111111               0011122233334455


Q ss_pred             cCcEEEEEEEEEE----CC-EEEEEEEeEEeCCCCCC---CCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHh
Q 015510          189 EGLTRELPILGFI----KG-VWMVGVIDEIQMPVKET---ARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNL  260 (405)
Q Consensus       189 ~G~~REl~V~G~i----~G-~~v~GIIDeL~~~~~~~---~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L  260 (405)
                      .|..  ....|.+    .| .-+.|.+|-|...++.+   +..+.++|+|-++..       +..+++|+.+|.+++..+
T Consensus        65 ~G~~--~I~~a~l~~~~~~~~~~~~~~DlL~r~~~~s~~g~~~Y~pve~Kls~~~-------k~~~~lqlA~ya~lL~~~  135 (457)
T TIGR03491        65 AGAD--GIYGGRLKHDLPQNLPHVSHPDLLVKDPGRSAWGDWAYEPVLIKLGKRP-------KDEYRLVLAFHALLLESF  135 (457)
T ss_pred             cCCc--EEEEeEeecccCCCCceEEECCEEEecCCCCCCCCceEEEEEEEecCCC-------CHHHHHHHHHHHHHHHHh
Confidence            6622  2223322    22 45899999999866521   345799999998864       358999999999999987


Q ss_pred             hcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHHHHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeee
Q 015510          261 AADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLGDLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFA  340 (405)
Q Consensus       261 ~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~  340 (405)
                      .             |..|.                                        ...|.+   +++.........
T Consensus       136 ~-------------g~~~~----------------------------------------~~~l~l---~~~~~~~~~~~~  159 (457)
T TIGR03491       136 Q-------------GVAPK----------------------------------------KGLIIL---RDGNSLKVELIK  159 (457)
T ss_pred             c-------------CCCCC----------------------------------------eEEEEE---CCCceEEEEhHh
Confidence            3             23221                                        333333   222222222233


Q ss_pred             cCHHHHHHHHHhhhhhhccccccCCCCCCCcccCCCCCCCCCCC
Q 015510          341 FDYDLFNSQIEVCLEFWKGEREASFTPLEDRWKCRYCQFESVCP  384 (405)
Q Consensus       341 yd~~~L~~~l~~~~~fW~G~Re~~~V~~ee~~KCk~CeF~~~C~  384 (405)
                      +.+. +...+........+..+|...+  +..+|..|.|.+.|.
T Consensus       160 ~~~~-~~~~~~~~~~~L~~~~~P~~~~--~~~~C~~C~~~~~C~  200 (457)
T TIGR03491       160 LLPQ-LRQDLADFLLTLNADLEPEVFI--SRKKCTLCSWRKDCE  200 (457)
T ss_pred             hhHH-HHHHHHHHHHHhcCCCCCCCcC--ChhhcccCchHHHHH
Confidence            3322 5556666666666655554322  358999999999993

Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.

>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type

Probab=97.17  E-value=0.0011  Score=77.54  Aligned_cols=121  Identities=21%  Similarity=0.185  Sum_probs=76.7

Q ss_pred             HHHHHHHHHHHHHHHhhcccee-e-------------eeccchhHH---HHHHHHHHHH-HHHH-hH--cCcEEEEEEEE
Q 015510          141 KVMKVGRARHAELEKEVTEKVK-V-------------RVRSTEDIW---AVKLFNSITG-VNQL-LF--EGLTRELPILG  199 (405)
Q Consensus       141 ~am~~Gt~iH~~LE~e~~~~v~-v-------------~i~t~ed~w---a~klln~i~~-l~~L-~~--~G~~REl~V~G  199 (405)
                      .+..+||.+|.++|..-..... .             .+.+.+..-   ..+++.|+.. |-+. ..  ...-||.|+.-
T Consensus      1058 ~~ae~Gta~H~~mq~ld~~~~~~~~~i~~~i~~l~~~~~l~~~~~~~i~~~~i~~F~~s~lg~r~~~a~~~~~rE~~F~~ 1137 (1232)
T TIGR02785      1058 TAAEIGTATHLVMQHLDLSKDLSEEELQAQIDRLVKNELLTEEQAEKINIDKIVAFFDTPLGKQILKAKEVLRREPFFSM 1137 (1232)
T ss_pred             CHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHcCCCCHHHHhhCCHHHHHHHhcCHHHHHHHhhhhceeeeCChhh
Confidence            4789999999999987532111 0             011222111   1345555542 2222 22  34788988654


Q ss_pred             EE--------------CCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCC----hhhccchhhHHHHHHHHHHHhh
Q 015510          200 FI--------------KGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPA----ESQKRNGRLQLMCYKYMWDNLA  261 (405)
Q Consensus       200 ~i--------------~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~----~~~~~~~~lQLmlY~~ll~~L~  261 (405)
                      .+              +.++|.||||-+-..++    +++|+||||=.... +.    +....--+.||.||+..+..+.
T Consensus      1138 ~~~~~~~~~~~~~~~~e~vlvqGiiD~~f~~~d----~ivL~DYKTD~v~~-~~~~~~~~l~~rY~~Ql~lY~~Ale~i~ 1212 (1232)
T TIGR02785      1138 LISAEIYFDDRDEADEEDILVQGIIDGYLESED----GIVLFDYKTDHVEG-PSFEKINQLKERYRGQLALYEKALEEIY 1212 (1232)
T ss_pred             cCcHHHhccccccCCCCcEEEEEeEEEEEEECC----EEEEEEecCCCcCC-cccchHHHHHHHHHHHHHHHHHHHHHHh
Confidence            22              34999999999998765    79999999998643 10    1133445799999999999986


Q ss_pred             cCCCC
Q 015510          262 ADNFP  266 (405)
Q Consensus       262 ~~~~~  266 (405)
                      ..++.
T Consensus      1213 ~~~v~ 1217 (1232)
T TIGR02785      1213 KKKVK 1217 (1232)
T ss_pred             CCCcc
Confidence            65443

AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.

>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]

Probab=96.53  E-value=0.0079  Score=70.08  Aligned_cols=59  Identities=20%  Similarity=0.125  Sum_probs=45.4

Q ss_pred             CCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh------hhccchhhHHHHHHHHHHHhhcCC
Q 015510          202 KGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE------SQKRNGRLQLMCYKYMWDNLAADN  264 (405)
Q Consensus       202 ~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~------~~~~~~~lQLmlY~~ll~~L~~~~  264 (405)
                      .+..|+|+||.|-..++    +++|+||||..-..-...      .....-++|+.+|...+..+....
T Consensus      1057 ~~~~~~G~IDl~f~~~~----~~yivDYKTn~l~~~~~~y~~~~~~~~~~Y~~Q~~lY~~al~~~l~~r 1121 (1139)
T COG1074        1057 ERGLLQGIIDLLFRHEG----RYYILDYKTNRLGDDSAAYSPAEAMLKQRYDLQLQLYAEALHRILRKR 1121 (1139)
T ss_pred             hcceeEEEEEEEEEECC----EEEEEEccCCCCCCchhhhhhhhhhhHHHHHHHHHHHHHHHHHHhccc
Confidence            45779999999999865    899999999765432222      135556799999999999987664

>PF06023 DUF911: Archaeal protein of unknown function (DUF911); InterPro: IPR009260 This family consists of several archaeal strongly conserved proteins whose genes are associated with CRISPRs (Clustered, Regularly Interspaced Short Palidromic Repeats)

Probab=96.46  E-value=0.046  Score=54.70  Aligned_cols=135  Identities=21%  Similarity=0.241  Sum_probs=80.8

Q ss_pred             CCccccccCCccccccc--eeeeeecCCcc-ccHHHHHHHHHHHHHHHhhccceee-----e----e--ccc--------
Q 015510          111 RALSVTDVTDTEWCEKK--MEFNLLFGSKK-VNKVMKVGRARHAELEKEVTEKVKV-----R----V--RST--------  168 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq--~~Y~l~~g~~~-~t~am~~Gt~iH~~LE~e~~~~v~v-----~----i--~t~--------  168 (405)
                      -+|||++++. .-||-.  .|.+-..|.+. .+.+|..|..||+++=..+.+....     .    .  ...        
T Consensus        43 ~~LsvsEVa~-~yCpT~RDvYLRRV~gvr~e~s~~m~~G~~iH~v~~~a~~~~kr~i~~g~~~~~~~~~~~~~~~~~~~~  121 (289)
T PF06023_consen   43 LRLSVSEVAY-GYCPTGRDVYLRRVLGVRGEPSEAMSKGRAIHEVFATAFREAKRLIYSGVPPWWDLERILMEDEFEAPE  121 (289)
T ss_pred             cCCCHHHHhc-CCCCCCcceeeeecccccCCcccccchhHHHHHHHHHHHHHHHHHHHcCCCccHHHHHHhhhhhhhchH
Confidence            4799999984 556643  34454455543 5899999999999877765431111     0    0  001        


Q ss_pred             -hhHHHHHHHHHHHH-HHHHhH----c--------------CcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEe
Q 015510          169 -EDIWAVKLFNSITG-VNQLLF----E--------------GLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVD  228 (405)
Q Consensus       169 -ed~wa~klln~i~~-l~~L~~----~--------------G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D  228 (405)
                       ....+.++++++.. +..-+.    .              ....|.+|-|..=|.-=.-.+|-+...      ...|+|
T Consensus       122 ~~~~~~~~l~~~~~~~~~a~~~~v~ak~~~~~~dsl~~~~~P~~~E~~vDGs~LGLS~~lr~Da~~~~------~~~Vve  195 (289)
T PF06023_consen  122 ELREKARKLYKYEASRLLAELDEVRAKYPYLTEDSLASLAIPIAVEYPVDGSPLGLSDNLRVDAFVLF------GPVVVE  195 (289)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhhccCceEEEeccCCcccccccccccceeccc------CceEEE
Confidence             11245556654322 111111    1              134555555554443334556665554      339999


Q ss_pred             ecccCCCCCCChhhccchhhHHHHHHHHHHHh
Q 015510          229 TKTRAQYTLPAESQKRNGRLQLMCYKYMWDNL  260 (405)
Q Consensus       229 ~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L  260 (405)
                      +|||...        .-+++|+.=|++.++..
T Consensus       196 ~K~G~~~--------~~h~lalaGYALA~Es~  219 (289)
T PF06023_consen  196 VKTGEYR--------DFHRLALAGYALAIESW  219 (289)
T ss_pred             EecCCch--------hHHHHHHHHHHHHHHHh
Confidence            9999853        67899999999999886

The function of these proteins has not been experimentally determined, but computational analysis has suggested that they may function as nucleases in DNA repair, similar to RecB (IPR004586 from INTERPRO) [].

>PF10926 DUF2800: Protein of unknown function (DUF2800); InterPro: IPR021229 This entry is represented by Bacteriophage APSE-1, protein 51

Probab=96.42  E-value=0.057  Score=55.87  Aligned_cols=136  Identities=16%  Similarity=0.098  Sum_probs=78.8

Q ss_pred             CccccccCCccccccceeeeeecCCcc-ccHHHHHHHHHHHHHHHhhccceeeee----c----------cchhHHHHHH
Q 015510          112 ALSVTDVTDTEWCEKKMEFNLLFGSKK-VNKVMKVGRARHAELEKEVTEKVKVRV----R----------STEDIWAVKL  176 (405)
Q Consensus       112 ~LSVTdL~~~~WCElq~~Y~l~~g~~~-~t~am~~Gt~iH~~LE~e~~~~v~v~i----~----------t~ed~wa~kl  176 (405)
                      .||+|.-...+-|+=--.  +..+.|. .+.+...||.-|..-|.-+........    .          ...+.+..-.
T Consensus         3 ~LSaSsa~RWl~Cp~S~~--Le~~~pd~~S~~A~EGT~AH~laE~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~eM~~~~   80 (372)
T PF10926_consen    3 LLSASSAHRWLNCPPSAR--LEEGFPDTSSEAAAEGTAAHELAELKLRKYLDPESKRPTNIELKKLKKSEEYDDEMADYV   80 (372)
T ss_pred             cCCcccchhhhcCChhHH--hhccCCCCCCHHHHHhHHHHHHHHHHHHHhcCCccccccchhhccccCCCcCCHHHHHHH
Confidence            366666666666765433  3334454 578999999999988887664332210    0          0112232222


Q ss_pred             HHHHHHHHHHhH---cC-cEEEEEEEE--EECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHH
Q 015510          177 FNSITGVNQLLF---EG-LTRELPILG--FIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQL  250 (405)
Q Consensus       177 ln~i~~l~~L~~---~G-~~REl~V~G--~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQL  250 (405)
                      -..+.-+..++.   .+ +.-|-.|..  ++.+  -.|..|-|-+.++    .+.|+|+|+|+--.+     ..-.--||
T Consensus        81 ~~Yvd~v~e~~~~~~~~~v~vEqrvd~s~~vp~--~fGT~D~vii~~~----~L~IiDlKyG~GV~V-----~Ae~NpQl  149 (372)
T PF10926_consen   81 DDYVDYVRELIEEAKDPEVLVEQRVDFSRYVPE--GFGTADCVIIADD----TLHIIDLKYGKGVPV-----SAEENPQL  149 (372)
T ss_pred             HHHHHHHHHHHHhcCCCeEEEEEEecccccCCC--CCCceeEEEEeCC----eEEEEECCCCCCCcc-----cCCCCHHH
Confidence            222233333333   33 344444432  2333  5688888888854    899999999996322     23556799


Q ss_pred             HHHHHHHHHh
Q 015510          251 MCYKYMWDNL  260 (405)
Q Consensus       251 mlY~~ll~~L  260 (405)
                      |+|.+-.-+.
T Consensus       150 ~lYALGAl~~  159 (372)
T PF10926_consen  150 MLYALGALEQ  159 (372)
T ss_pred             HHHHHHHHHH
Confidence            9998655443

The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised proteins found in bacteria and viruses. Some members of this family are annotated as being Phi APSE P51-like proteins.

>PRK09709 exonuclease VIII; Reviewed

Probab=95.91  E-value=0.018  Score=64.40  Aligned_cols=153  Identities=17%  Similarity=0.112  Sum_probs=93.7

Q ss_pred             hHHHhhcCCCccccccCCccccccceeeeeecCCc-cccHHHHHHHHHHH-HHHHhhc-cceeeee----ccc---h---
Q 015510          103 LLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSK-KVNKVMKVGRARHA-ELEKEVT-EKVKVRV----RST---E---  169 (405)
Q Consensus       103 pl~rfr~k~~LSVTdL~~~~WCElq~~Y~l~~g~~-~~t~am~~Gt~iH~-~LE~e~~-~~v~v~i----~t~---e---  169 (405)
                      |.+.|+.-..+|=|.|....-|+.-|+|+.....+ +.|++|..|+.+|. +||.+.. ...-+..    .+.   +   
T Consensus       615 pNeeYHA~~aISSSqLk~i~~SPA~y~~r~~~p~~~E~TkALdfGtA~H~LVLEPe~F~kEfvV~Pe~~rRTkeGKee~k  694 (877)
T PRK09709        615 SNENYHAGPGVSKSQLDDIADTPALYLWRKNAPVDTTKTKTLDLGTAFHCRVLEPEEFSNRFIVAPEFNRRTNAGKEEEK  694 (877)
T ss_pred             CHHHhcCCCCcCHHHHHHHhcCHHHHHhhhcCCCCCCCcchhhhhHHHHHHHhCcccccceEEeccccccccccchHHHH
Confidence            35777777789999999999999999888843333 36999999999998 5555421 1111110    111   0   


Q ss_pred             ----------------hHH--HHHHHHHHHH---HHHHhH-cCcEEEEEEEEE--ECCEEEEEEEeEEeCCCCCCCCCcE
Q 015510          170 ----------------DIW--AVKLFNSITG---VNQLLF-EGLTRELPILGF--IKGVWMVGVIDEIQMPVKETARNPI  225 (405)
Q Consensus       170 ----------------d~w--a~klln~i~~---l~~L~~-~G~~REl~V~G~--i~G~~v~GIIDeL~~~~~~~~~~l~  225 (405)
                                      +.|  +..+...+..   ...|+. .|. .|.-++..  ..|+++++.+|.+.  +.    ..+
T Consensus       695 af~~~c~~~GKtvIt~ddyd~a~~MadAV~ahP~a~~LL~s~G~-aEvSifW~DeETGL~cK~RPD~l~--p~----~~i  767 (877)
T PRK09709        695 AFLMECASTGKTVITAEEGRKIELMYQSVMALPLGQWLVESAGH-AESSIYWEDPETGILCRCRPDKII--PE----FHW  767 (877)
T ss_pred             HHHHHHHhcCceecCHHHHHHHHHHHHHHHhChhHHHHhhCCCc-eeEEEEeecCCCCceEEEEcceec--CC----Cce
Confidence                            111  1222222221   122444 355 46666654  35999999999975  22    458


Q ss_pred             EEeecccCCCC-CCChhhccchhhHHHHHHHHHHHhhc
Q 015510          226 LVDTKTRAQYT-LPAESQKRNGRLQLMCYKYMWDNLAA  262 (405)
Q Consensus       226 I~D~KTR~~~~-lP~~~~~~~~~lQLmlY~~ll~~L~~  262 (405)
                      |+|+||-.... .-.......-.+|..+|...+..+..
T Consensus       768 IvDLKTTad~~~F~Rsi~~ygYHvQAAfY~DG~raatG  805 (877)
T PRK09709        768 IMDVKTTADIQRFKTAYYDYRYHVQDAFYSDGYEAQFG  805 (877)
T ss_pred             EEEeccccCHHHHHHHHHHcCCcccHHHHHHHHHHhhC
Confidence            99999986321 00111234556999999988877543

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]

Probab=95.59  E-value=0.051  Score=61.69  Aligned_cols=214  Identities=18%  Similarity=0.171  Sum_probs=120.5

Q ss_pred             CCCccccccCCccccccceeeeeecCC-ccccHHHHHHHHHHHHHHHhhccce-ee---eec--c---------------
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGS-KKVNKVMKVGRARHAELEKEVTEKV-KV---RVR--S---------------  167 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~-~~~t~am~~Gt~iH~~LE~e~~~~v-~v---~i~--t---------------  167 (405)
                      ...+|.|.+.+..-|.++-...-..+. ...|.+|..|+.+|++++..+.... .+   ...  +               
T Consensus       182 D~Lis~TtVasS~~C~Rr~VL~erfr~~n~~t~~mllGtIvHevfQ~al~qk~~~~~~~~~~~~~q~~~~~s~l~~~~~~  261 (1100)
T KOG1805|consen  182 DDLISGTTVASSLFCLRRTVLNERFRSGNSHTKAMLLGTIVHEVFQKALIQKSFAVDELILQASLQISKYISELYALGVS  261 (1100)
T ss_pred             CccccccchhhccccchHHHHHHHhccCCCchhhHHHHHHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHcccC
Confidence            456899999999999998876543332 3568999999999999999977432 11   110  0               


Q ss_pred             ------chhHHHHHHHHHHHHHHH-------------HhHcC------cEEEEEEEEEECCEEEEEEEeEEeCCCCCC-C
Q 015510          168 ------TEDIWAVKLFNSITGVNQ-------------LLFEG------LTRELPILGFIKGVWMVGVIDEIQMPVKET-A  221 (405)
Q Consensus       168 ------~ed~wa~klln~i~~l~~-------------L~~~G------~~REl~V~G~i~G~~v~GIIDeL~~~~~~~-~  221 (405)
                            ..+...-++.+++.....             +...+      +--|.-+|--.-|  +.|.||--....... -
T Consensus       262 ~~~i~~el~~~l~~i~~~i~~f~~~~~s~~~~s~~~~~~~~~i~i~ev~DIEEniWsp~fG--LKG~iDatv~v~v~~~~  339 (1100)
T KOG1805|consen  262 EDVIRNELEKYLPNICLWIEHFVHKPLSGSFPSKRGPLPSKSIQISEVIDIEENIWSPKFG--LKGKIDATVRVKVEEGK  339 (1100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhcccccCCcchhcCCCCCCceeeeeeeehhhhhcccccC--CcceeeeEEEEEEccCc
Confidence                  011112222333321100             00011      1112222222224  677777544321110 1


Q ss_pred             CCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHHHhhcCCCCchhhhhhcCCCCCCCCCHHHHHhhhcCCCCCCCHH
Q 015510          222 RNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWDNLAADNFPSMQFYDFFSLNSDCILSEEIIEKTSNAGFPAKTLG  301 (405)
Q Consensus       222 ~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~~~~gLdpd~~~S~~~~~~~~~iGf~~~tl~  301 (405)
                      ..+.=.+.|||+...      -..+.-|++||.+|+++=             |+.+-.                      
T Consensus       340 eti~PLElKTGk~~~------sieh~~QvlLYtLl~seR-------------y~~~~~----------------------  378 (1100)
T KOG1805|consen  340 ETIMPLELKTGKSSS------SIEHVGQVLLYTLLLSER-------------YEIPIL----------------------  378 (1100)
T ss_pred             ccccceeeecCCccc------chHHHHHHHHHHHHHHhh-------------ccCCcc----------------------
Confidence            135558899999752      157889999999888763             332110                      


Q ss_pred             HHHHHHHHHhhhCCCCCCceEEEEEEccCCCeeeeeeeecCHHHHHH--HHHhhhhhhccccccCC---------CCCCC
Q 015510          302 DLVKYFRNMWNMLPASHNQLLLRYEFQKDQSLLGEEKFAFDYDLFNS--QIEVCLEFWKGEREASF---------TPLED  370 (405)
Q Consensus       302 dllry~~~~~~~lP~~~~~L~IeY~~~~d~~~~~~~~f~yd~~~L~~--~l~~~~~fW~G~Re~~~---------V~~ee  370 (405)
                                        .-.|-|.-  +|.   .+.++-...++..  ..+.-|+||.-.+....         -+..+
T Consensus       379 ------------------~glL~YLk--~~~---~~~v~~~~~dlr~LL~~RN~lA~~~~h~~~~~~s~~~~~lpe~~~~  435 (1100)
T KOG1805|consen  379 ------------------PGLLYYLK--DGQ---LVEVPSKHSDLRGLLMLRNRLANDLVHQEDVSASAQGGNLPEPILE  435 (1100)
T ss_pred             ------------------cceEEEec--CCC---EeecccchHHHHHHHHHHHHHHhhhhhhcccccccccCCCCCcccc
Confidence                              11233332  221   2355566666665  34777787776544331         23466


Q ss_pred             cccCCCCCCCCCCCCcCCC
Q 015510          371 RWKCRYCQFESVCPAVLKP  389 (405)
Q Consensus       371 ~~KCk~CeF~~~C~w~~~~  389 (405)
                      ..-|.+|.+...|.....+
T Consensus       436 d~~C~~cs~~~~c~~~~~~  454 (1100)
T KOG1805|consen  436 DSSCDHCSHKTACSFFQKL  454 (1100)
T ss_pred             ccccchHHHHHHHHHHHHH
Confidence            8899999999999864443

>TIGR00609 recB exodeoxyribonuclease V, beta subunit

Probab=92.27  E-value=0.21  Score=58.20  Aligned_cols=60  Identities=17%  Similarity=0.116  Sum_probs=41.7

Q ss_pred             EEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh-h--------hccchhhHHHHHHHHHHHhhcCCCCc
Q 015510          204 VWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE-S--------QKRNGRLQLMCYKYMWDNLAADNFPS  267 (405)
Q Consensus       204 ~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~-~--------~~~~~~lQLmlY~~ll~~L~~~~~~~  267 (405)
                      =.++|+||-+-.-+    +.++|+||||---..-|.. .        ....-.+|-.+|...|..+....++-
T Consensus       976 G~l~GfIDLvf~~~----gryyvlDyKSN~LG~~~~~Y~~~~l~~~m~~~~Y~LQy~lY~lALhR~L~~rl~~ 1044 (1087)
T TIGR00609       976 GLLKGFIDLVFEHN----GRYYILDYKSNWLGKDASDYSPEALTEAILKERYDLQYLIYTLALHRYLRKRLKD 1044 (1087)
T ss_pred             cceeeeEEEEEEEC----CEEEEEEcccccCCCChhhcCHHHHHHHHHHcCChHHHHHHHHHHHHHHHHhCCC
Confidence            36899999998764    4899999999654332322 1        12233699999998888887765443

All proteins in this family for which functions are known are DNA-DNA helicases that are used as part of an exonuclease-helicase complex (made up of RecBCD homologs) that function to generate substrates for the initiation of recombination and recombinational repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG2251 Predicted nuclease (RecB family) [General function prediction only]

Probab=91.26  E-value=0.43  Score=50.39  Aligned_cols=133  Identities=17%  Similarity=0.126  Sum_probs=72.7

Q ss_pred             CccccccCCccccccceeeee---ecCCccccH-----HHHHHHHHHHHHHHhhcc---ce-eeeec-----cchhHHHH
Q 015510          112 ALSVTDVTDTEWCEKKMEFNL---LFGSKKVNK-----VMKVGRARHAELEKEVTE---KV-KVRVR-----STEDIWAV  174 (405)
Q Consensus       112 ~LSVTdL~~~~WCElq~~Y~l---~~g~~~~t~-----am~~Gt~iH~~LE~e~~~---~v-~v~i~-----t~ed~wa~  174 (405)
                      ..|+++|....-|+++-..+-   ..|+..+.+     ....-..+|..++++++-   .. .+.+.     |.. .++.
T Consensus         2 ~~~~s~l~~~~Rc~rr~~l~~~~~~~~r~~~~~~l~kl~~~~~~~~~~~~~~~f~~~e~~~~~~~i~~r~~~t~~-~~~~   80 (474)
T COG2251           2 LYSASDLLAYQRCQRRALLRTFDARLGRGPPVAVLLKLPQERAALINDHELKEFQLREEETAKRLIIGRAAYTGT-LMAA   80 (474)
T ss_pred             cccHHHHHHHHhhhhhHHHHHHHHhhccCchHHHHHHHhHHHHHHhhHHHHhhhhhcccccccceeeccccccHH-HHHh
Confidence            358899999999999754332   223322211     123334566777776641   11 11111     111 1111


Q ss_pred             HHHHHHHHHHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHH
Q 015510          175 KLFNSITGVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYK  254 (405)
Q Consensus       175 klln~i~~l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~  254 (405)
                      --+.+..  .-|..++-.-..++-  +..+.+.|.+|=|..+..    ..+|+|.|-.+.+++       ...+|..+|+
T Consensus        81 ~a~~~~r--~~L~~n~~~~~~~~~--~~~~~~vg~pD~likdG~----~yriv~~kl~k~pK~-------~~~lq~a~ya  145 (474)
T COG2251          81 GADEIFR--EVLIANRAPLYQPVL--VGKIELVGFPDFLIKDGD----VYRIVDAKLAKRPKL-------PYRLQAAFYA  145 (474)
T ss_pred             hHHHHHH--HHHHhCCcccccccc--cccceeecCCcceeccCc----EEEEeecccccCccc-------HHHHHHHHHH
Confidence            1111111  113333322222211  112268999999988432    789999999998754       5889999999


Q ss_pred             HHHHHh
Q 015510          255 YMWDNL  260 (405)
Q Consensus       255 ~ll~~L  260 (405)
                      .+|..+
T Consensus       146 ~~La~~  151 (474)
T COG2251         146 LLLAKS  151 (474)
T ss_pred             HHHHhc
Confidence            998775

>PF08696 Dna2: DNA replication factor Dna2; InterPro: IPR014808 Dna2 is a DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, (5'-flap endonuclease) and helicase activities

Probab=90.95  E-value=0.16  Score=48.43  Aligned_cols=49  Identities=22%  Similarity=0.409  Sum_probs=41.1

Q ss_pred             CCCccccccCCccccccceeeeeec-CCccccHHHHHHHHHHHHHHHhhc
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLF-GSKKVNKVMKVGRARHAELEKEVT  158 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~-g~~~~t~am~~Gt~iH~~LE~e~~  158 (405)
                      ..-+|+|.+....+|.+|....-.. +....+++|-.|+.+|..++..+.
T Consensus        57 D~LiS~T~Va~s~~C~RravL~er~~~~~~~s~~ml~GtIvHelfQ~~l~  106 (209)
T PF08696_consen   57 DILISATSVASSFFCPRRAVLQERFKGPGESSKPMLIGTIVHELFQKALR  106 (209)
T ss_pred             CceecceeeecccccccHHHHHHHhcCCCCCChhheeeeeHHHHHHHHHh
Confidence            4469999999999999999877654 323468999999999999999985

It is required for Okazaki fragment processing and is involved in DNA repair pathways []. ; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication

>PRK10876 recB exonuclease V subunit beta; Provisional

Probab=90.75  E-value=0.54  Score=55.42  Aligned_cols=58  Identities=17%  Similarity=0.099  Sum_probs=40.7

Q ss_pred             EEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh-h--------hccchhhHHHHHHHHHHHhhcCCCCc
Q 015510          206 MVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE-S--------QKRNGRLQLMCYKYMWDNLAADNFPS  267 (405)
Q Consensus       206 v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~-~--------~~~~~~lQLmlY~~ll~~L~~~~~~~  267 (405)
                      ++|+||-+-.-.    +.++|+||||---..-|.. .        ....-.+|-.+|...|.++....++-
T Consensus      1062 l~GfIDLvf~~~----gryyvlDyKSN~LG~~~~~Y~~~al~~am~~h~Y~LQy~lY~lALhR~L~~rl~~ 1128 (1181)
T PRK10876       1062 LKGFIDLVFRWQ----GRYYLLDYKSNWLGEDSSAYTQEAMAQAMQAHRYDLQYQLYTLALHRYLRHRLAD 1128 (1181)
T ss_pred             ccceEEEEEEEC----CEEEEEEccccCCCCChhhcCHHHHHHHHHHcCChHHHHHHHHHHHHHHHhhCCC
Confidence            889999998764    4899999998654332321 1        12233699999999998887765443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	405
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-10

>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 = 60.3 bits (145), Expect = 6e-10
 Identities = 67/515 (13%), Positives = 140/515 (27%), Gaps = 154/515 (29%)

Query: 12  QDVNSANVTPDIPIEIVSEEEMALIDAALAAPR------------CCSPSSSLS--FASQ 57
            + +  +V  D+P  I+S+EE   ID  + +                     +       
Sbjct: 31  DNFDCKDV-QDMPKSILSKEE---IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEV 86

Query: 58  LQRNARFIHS-------------ISFLSKRSFSGRTESDIEDLGHLGMTQKRNIIA-KSL 103
           L+ N +F+ S               ++ +R    R  +D +      +++ +  +  +  
Sbjct: 87  LRINYKFLMSPIKTEQRQPSMMTRMYIEQRD---RLYNDNQVFAKYNVSRLQPYLKLRQA 143

Query: 104 LDRFRKNRALSV------------TDVTDTEWCEKKMEFN---LLFGS-KKVNKVMK--- 144
           L   R  + + +             DV  +   + KM+F    L   +      V++   
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203

Query: 145 ----------VGRARHAELEKEVTEKVKVRVRST-------------EDIWAVKLFNSIT 181
                       R+ H+   K     ++  +R                ++   K +N+  
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263

Query: 182 GVNQLLFEGLTRELPILGFIKGVWMVGV-IDEIQMPVKETARNPILVD-TKTRAQYTLPA 239
              ++L    TR   +  F+       + +D   M +       +L+     R Q  LP 
Sbjct: 264 LSCKILL--TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ-DLPR 320

Query: 240 ESQKRNGRLQLMC------YKYMWDNLAADNFPSMQ------------------FYDFFS 275
           E    N R   +           WDN    N   +                   F     
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 276 LNSD--------CIL--------SEEIIEKTSNAGFPAK-------TLGDLVKYFRNMWN 312
                        ++           ++ K        K       ++  +  Y      
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI--YLELKVK 438

Query: 313 M--LPASHNQLLLRYEFQK-----DQSLLGEEKFAFD---YDLFNSQIEVCLEFWKGERE 362
           +    A H  ++  Y   K     D      +++ +    + L N +          ER 
Sbjct: 439 LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE--------HPERM 490

Query: 363 ASFTP--LEDRW---KCRYCQFESVCPAVLKPEIT 392
             F    L+ R+   K R+          +   + 
Sbjct: 491 TLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQ 525

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	405
3u4q_B	1166	ATP-dependent helicase/deoxyribonuclease subunit;	99.32
4ic1_A	206	Uncharacterized protein; CAS4, crispr, MCSG, exonu	99.24
3l0a_A	266	Putative exonuclease; RER070207002219, structural	99.01
3h4r_A	265	Exodeoxyribonuclease 8; exonuclease, recombination	98.68
3u4q_A	1232	ATP-dependent helicase/nuclease subunit A; helicas	98.66
1w36_B	1180	RECB, exodeoxyribonuclease V beta chain; recombina	96.59
1w36_C	1122	RECC, exodeoxyribonuclease V gamma chain; recombin	96.14

>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_B*

Probab=99.32  E-value=6.5e-13  Score=150.02  Aligned_cols=148  Identities=14%  Similarity=0.011  Sum_probs=95.1

Q ss_pred             CCCccccccCCccccccceeeeeecCCcccc----HHHHHHHHHHHHHHHhhcccee--eee--ccc-------------
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSKKVN----KVMKVGRARHAELEKEVTEKVK--VRV--RST-------------  168 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~~~t----~am~~Gt~iH~~LE~e~~~~v~--v~i--~t~-------------  168 (405)
                      ..++|||.|.++.-|+++|++.+..|.+++.    .++..|+.+|.+||..+.....  ...  .+.             
T Consensus       787 ~~~~S~S~le~~~~CP~~~f~~y~L~l~~~~~~~~~~~~~G~~~H~~Le~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  866 (1166)
T 3u4q_B          787 RIQGSVSRMETFNACPFSHFASHGLHLKERQFFKLEAPDIGQLFHSSLKLISDRLRDEKLDWRDLTKEQCELFSYDAVER  866 (1166)
T ss_dssp             SBCCBHHHHHHHHHCHHHHHHHTTSCCCCCCCSSCCSHHHHHHHHHHHHHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHH
T ss_pred             CcCCCHHHHHHHHhChHHHHHHhccCCCCccccCCCcchhhHHHHHHHHHHHHHHHHcCCChhhCCHHHHHHHHHHHHHH
Confidence            4479999999999999999999988877643    3799999999999998752110  000  000             


Q ss_pred             ---------------hhHHHHHHHHHHHH----HHHHhHcC----cEEEEEEE---------EEE---CCEEEEEEEeEE
Q 015510          169 ---------------EDIWAVKLFNSITG----VNQLLFEG----LTRELPIL---------GFI---KGVWMVGVIDEI  213 (405)
Q Consensus       169 ---------------ed~wa~klln~i~~----l~~L~~~G----~~REl~V~---------G~i---~G~~v~GIIDeL  213 (405)
                                     ...|..++..++..    +......+    ...|+.+-         -.+   .++.|+|+||||
T Consensus       867 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~E~~f~~~~~~~~~~~~l~~g~~v~l~GrIDRi  946 (1166)
T 3u4q_B          867 LAPKLQKEILLSSNRHYYVKEKLQKIVTRVSGILSEHAKASGFVPIGLELGFGGKGPLPPLTFQLKNGCTMELVGRIDRV  946 (1166)
T ss_dssp             HGGGSTTTHHHHSHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEEEESSSSSSCCEEEEETTTEEEEEBEEEEEE
T ss_pred             HHHhhhhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcceEeeecccCCCCCCceEEEcCCCCEEEEEEEEeee
Confidence                           01222333333332    21111223    44555431         011   248999999999


Q ss_pred             eCCCCCCCCCcEEEeecccCCCCCCCh-hhccchhhHHHHHHHHHHH
Q 015510          214 QMPVKETARNPILVDTKTRAQYTLPAE-SQKRNGRLQLMCYKYMWDN  259 (405)
Q Consensus       214 ~~~~~~~~~~l~I~D~KTR~~~~lP~~-~~~~~~~lQLmlY~~ll~~  259 (405)
                      +..+++...-+.|+|||||+.+  +.. ....+-.+||.+|..++..
T Consensus       947 D~~~~~~~~~~~IiDYKTg~~~--~~~~~~~~g~~lQL~~Y~~a~~~  991 (1166)
T 3u4q_B          947 DKAESSKGLLLRIVAYKSSDKG--LDLAEVYYGLALQMLTYLDLSIT  991 (1166)
T ss_dssp             EEEEETTEEEEEEEEEESSSCC--CCHHHHHTTSCCHHHHHHHHHHH
T ss_pred             eccccCCceEEEEEEeCCCCCC--CCHHHHhhcHHHHHHHHHHHHHH
Confidence            9986631112899999999864  332 3455668999999988755

>4ic1_A Uncharacterized protein; CAS4, crispr, MCSG, exonuclease, structural genomics, unknow function; 2.35A {Sulfolobus solfataricus}

Probab=99.24  E-value=1.9e-11  Score=113.41  Aligned_cols=112  Identities=18%  Similarity=0.220  Sum_probs=78.2

Q ss_pred             CCCccccccCCccccccceeeeeecCCc----cccHHHHHHHHHHHHHHHhhccceeeeeccchhHHHHHHHHHHHHHHH
Q 015510          110 NRALSVTDVTDTEWCEKKMEFNLLFGSK----KVNKVMKVGRARHAELEKEVTEKVKVRVRSTEDIWAVKLFNSITGVNQ  185 (405)
Q Consensus       110 k~~LSVTdL~~~~WCElq~~Y~l~~g~~----~~t~am~~Gt~iH~~LE~e~~~~v~v~i~t~ed~wa~klln~i~~l~~  185 (405)
                      .+.+-||+   +..|++|.+|....+..    ..+..|..|+.+|..++..+...                         
T Consensus        25 ~~~i~vs~---~~~CpR~~~l~~~~~~~~~~E~~~~~~~~G~~~H~~~~~~~~~~-------------------------   76 (206)
T 4ic1_A           25 ENTIYVTD---LVRCPRRVRYESEYKELAISQVYAPSAILGDILHLGLESVLKGN-------------------------   76 (206)
T ss_dssp             TTEEEHHH---HTSCHHHHHHHHHCHHHHGGGGGCHHHHHHHHHHHHHHHHHHHH-------------------------
T ss_pred             CCeEEEeH---HhcCCCHHHHHHHccccccccccChHHHHHHHHHHHHHHHHHhc-------------------------
Confidence            34566766   57999999887653221    13688999999999888765321                         


Q ss_pred             HhHcCcEEEEEEEEEE--C--CEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhccchhhHHHHHHHHHH
Q 015510          186 LLFEGLTRELPILGFI--K--GVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQKRNGRLQLMCYKYMWD  258 (405)
Q Consensus       186 L~~~G~~REl~V~G~i--~--G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~~~~~lQLmlY~~ll~  258 (405)
                         .|...|+++.+.+  +  ++.|+|+||+|...++   +.+.|+|+||++.+.  . .....+..||++|.+++.
T Consensus        77 ---~~v~~Ev~i~~~~~v~~~~~~l~GriD~i~~~~~---g~~~ive~Ktg~~~~--~-~~~~~~~~Ql~~Y~~~l~  144 (206)
T 4ic1_A           77 ---FNAETEVETLREINVGGKVYKIKGRADAIIRNDN---GKSIVIEIKTSRSDK--G-LPLIHHKMQLQIYLWLFS  144 (206)
T ss_dssp             ---SCEEEEEEEEEEEEETTEEEEEEEEEEEEEC-------CCEEEEEECCSCCT--T-SSCHHHHHHHHHHHHHHT
T ss_pred             ---cCccceEEEEEEEEeCCeEEEEEEEEEEEEEcCC---CCEEEEEEecCCCCc--c-cccHHHHHHHHHHHHHHH
Confidence               1345666666554  3  4789999999998754   488999999998752  1 224567799999998775

>3l0a_A Putative exonuclease; RER070207002219, structural genomics, center for structural genomics, JCSG, protein structure INI PSI-2, hydrolase; HET: PE4; 2.19A {Eubacterium rectale}

Probab=99.01  E-value=1.3e-09  Score=105.64  Aligned_cols=140  Identities=16%  Similarity=0.083  Sum_probs=96.2

Q ss_pred             CCccccccCCcc------ccccceeeeeecCC-ccccHHHHHHHHHHHHHHHhhccceee---e-eccc---hh--HHHH
Q 015510          111 RALSVTDVTDTE------WCEKKMEFNLLFGS-KKVNKVMKVGRARHAELEKEVTEKVKV---R-VRST---ED--IWAV  174 (405)
Q Consensus       111 ~~LSVTdL~~~~------WCElq~~Y~l~~g~-~~~t~am~~Gt~iH~~LE~e~~~~v~v---~-i~t~---ed--~wa~  174 (405)
                      ..+|||.+....      -||-...-.+-..- +.+++||..|+.+|.-||. +|+....   + +.++   ..  .-|.
T Consensus        17 ~y~S~S~~k~f~~~~~~~~cea~~~a~l~g~~~~~~~~all~Gs~vH~~~E~-~~~~F~~~~p~~~~~~g~l~~~~~~a~   95 (266)
T 3l0a_A           17 EYMSVSGYKDFAGTYGKMPCEFYGMEKLNGRWEDEKSTALLVGSYVDSYFEG-SLDQFKKDNPEIFTQKGELKANFKQAE   95 (266)
T ss_dssp             HCEEHHHHHHHHCBTTBCCCHHHHHHHHHTSCCCCCCHHHHHHHHHHHHHHT-CHHHHHHHCGGGBCTTSSBCHHHHHHH
T ss_pred             ceEcHHHHHHHHhhcccCCCHHHHHHHHcCCCCcCCCcHHHHhHHHHHHHHH-HHHHHHHhChhhccchhhHHHHHHHHH
Confidence            369999999998      99998877775322 3478899999999999997 5532211   1 1111   11  2234


Q ss_pred             HHHHHHH---HHHHHhHcCcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh----------h
Q 015510          175 KLFNSIT---GVNQLLFEGLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE----------S  241 (405)
Q Consensus       175 klln~i~---~l~~L~~~G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~----------~  241 (405)
                      ++.+.+.   ....|+ .| .+|+.+.|.+.|+.++|.||.|...      . .|+|+||.+... |..          .
T Consensus        96 ~Mi~~l~~dp~f~~l~-~G-ekEv~~tge~~Gv~~KgriD~L~~~------~-~ivDlKTt~~~~-~~~~~~~~~~~~~i  165 (266)
T 3l0a_A           96 EIIARIERDEYFMKYM-SG-QKQVIMTGELFGAKWKIKMDSYIPG------V-AIVDLKVMASIT-DLKWVKDIGYLDFV  165 (266)
T ss_dssp             HHHHHHHTCHHHHHHT-TS-EEEEEEEEEETTEEEEEEEEEEETT------T-EEEEEEEESCSS-CCEEETTTEEECHH
T ss_pred             HHHHHHHcChhHHHHh-cC-CeEEEEEEeECCEEEEEEeEEecCC------C-eEEEeccCCccC-hhhccccccccchh
Confidence            4444333   234455 56 7999999999999999999998744      2 899999987521 111          1


Q ss_pred             hccchhhHHHHHHHHHHHhh
Q 015510          242 QKRNGRLQLMCYKYMWDNLA  261 (405)
Q Consensus       242 ~~~~~~lQLmlY~~ll~~L~  261 (405)
                      ..-.-.+|+-+|+.++....
T Consensus       166 ~~~gY~~QmA~Y~ell~q~~  185 (266)
T 3l0a_A          166 RYWGYDIQGAVYQEIVRQNT  185 (266)
T ss_dssp             HHTTHHHHHHHHHHHHHHHH
T ss_pred             hhcCHHHHHHHHHHHHHHHh
Confidence            12366899999999998863

>3h4r_A Exodeoxyribonuclease 8; exonuclease, recombination, hydrolase; 2.80A {Escherichia coli}

Probab=98.68  E-value=1.6e-08  Score=97.73  Aligned_cols=149  Identities=15%  Similarity=0.094  Sum_probs=92.7

Q ss_pred             hHHHhhcCCCccccccCCccccccceeeeeecCCcc-ccHHHHHHHHHHHHHHH-h-hccceee----eeccch---h--
Q 015510          103 LLDRFRKNRALSVTDVTDTEWCEKKMEFNLLFGSKK-VNKVMKVGRARHAELEK-E-VTEKVKV----RVRSTE---D--  170 (405)
Q Consensus       103 pl~rfr~k~~LSVTdL~~~~WCElq~~Y~l~~g~~~-~t~am~~Gt~iH~~LE~-e-~~~~v~v----~i~t~e---d--  170 (405)
                      |.+.|+.-..||.|.|....-|+..|+|......++ +|+||..|+.+|..+.. + +....-+    .-.|+.   +  
T Consensus         3 ~~e~YHa~~aiS~S~l~~~~~~Pa~~~~~~~~~~~~~~s~A~~~Gt~~H~~vLep~~f~~~f~~~p~~~~rT~~gK~~~~   82 (265)
T 3h4r_A            3 HMENYHAGPGISKSQLDDIADTPALYLWRKNAPVDTTKTKTLDLGTAFHCRVLELEEFSNRFIVAPEFNRRTNAGKEEEK   82 (265)
T ss_dssp             --------CCBCHHHHHHHHHCHHHHHHHTTSCCCCCCCSCCTHHHHHHHHHSSHHHHTCC-------------------
T ss_pred             ChHHhcCCCCCCHHHHHHHhcCcHHHHHhccCCCCCCCcHHHHHHHHHHHHHhCcccccceEEEccccccccchhhHHHH
Confidence            346677667899999999999999999988765543 68999999999996543 2 2121111    111111   0  


Q ss_pred             HHH----------------HHHHHHHHH------HHHHhHcCcEEEEEEEEEE--CCEEEEEEEeEEeCCCCCCCCCcEE
Q 015510          171 IWA----------------VKLFNSITG------VNQLLFEGLTRELPILGFI--KGVWMVGVIDEIQMPVKETARNPIL  226 (405)
Q Consensus       171 ~wa----------------~klln~i~~------l~~L~~~G~~REl~V~G~i--~G~~v~GIIDeL~~~~~~~~~~l~I  226 (405)
                      .|.                .++..++..      +..|+..+-..|+.|+|..  .|+.++|.||+|.  ++    .++|
T Consensus        83 ~~~~~~~~~gk~~i~~~~~~~~~~m~~av~~~p~~~~l~~~~g~aEvsi~~~~~~~G~~~kgriD~l~--~~----~~~i  156 (265)
T 3h4r_A           83 AFLMECASTGKTVITAEEGRKIELMYQSVMALPLGQWLVESAGHAESSIYWEDPETGILCRCRPDKII--PE----FHWI  156 (265)
T ss_dssp             ---------------CCCTTHHHHHHHHHTTSHHHHHHHSSSCBSSCCEEEECTTTCCEEEECCSEEE--GG----GTEE
T ss_pred             HHHHHHHhCCCccCCHHHHHHHHHHHHHHHcChHHHHHhccCCCceeEEEEEecCCCceEEEEEEEEE--CC----CcEE
Confidence            110                112222222      3334544445799999986  4999999999996  22    5799


Q ss_pred             EeecccCCCCCCChh--h--ccchhhHHHHHHHHHHHh
Q 015510          227 VDTKTRAQYTLPAES--Q--KRNGRLQLMCYKYMWDNL  260 (405)
Q Consensus       227 ~D~KTR~~~~lP~~~--~--~~~~~lQLmlY~~ll~~L  260 (405)
                      +|+||.+.+   ...  .  .....+|+.+|+.++..+
T Consensus       157 vD~KT~~~~---~~~~~~i~~~~Y~~Q~A~Y~~~l~~~  191 (265)
T 3h4r_A          157 MDVKTTADI---QRFKTAYYDYRYHVQDAFYSDGYEAQ  191 (265)
T ss_dssp             EEEEEESCH---HHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             EEeCCCCCH---HHHHhhhccCCHHHHHHHHHHHHHHH
Confidence            999998853   111  1  356789999999998876

>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease, double strand DNA repair, protein-DNA CO hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus subtilis} PDB: 3u44_A*

Probab=98.66  E-value=8.8e-08  Score=109.21  Aligned_cols=149  Identities=15%  Similarity=0.100  Sum_probs=86.2

Q ss_pred             CCccccccCCccccccceeeeeec---------CCcc-----ccHHHHHHHHHHHHHHHhhccc-eee-eec--------
Q 015510          111 RALSVTDVTDTEWCEKKMEFNLLF---------GSKK-----VNKVMKVGRARHAELEKEVTEK-VKV-RVR--------  166 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq~~Y~l~~---------g~~~-----~t~am~~Gt~iH~~LE~e~~~~-v~v-~i~--------  166 (405)
                      ..+|||.|....-.+..++...+.         .+|.     +..+..+||.+|.+||...... ... .+.        
T Consensus      1012 ~k~SVSeikr~~~~~~~~~~~~~~~~~~~~~~~~~p~f~~~~~~~aa~rGT~~H~vle~l~~~~~~~~~~l~~~~~~l~~ 1091 (1232)
T 3u4q_A         1012 TKQSVSEIKRKREYEDEYSGRAPVKPADGSILYRRPAFMMKKGLTAAEKGTAMHTVMQHIPLSHVPSIEEAEQTVHRLYE 1091 (1232)
T ss_dssp             SEEEEC---------CCSEEC-----------CCCCTTTSCSSCCHHHHHHHHHHHHTTSCCSSCCCHHHHHHHHHHHHH
T ss_pred             cccCHHHHHhhcccccccccccccccccccccccCCcccccCCCChhhhHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHH
Confidence            359999999865444444322111         2222     3568999999999999984321 111 010        


Q ss_pred             ---cchhHH----HHHHHHHHHH-HHHHhH--cCcEEEEEEEEEE-------------CCEEEEEEEeEEeCCCCCCCCC
Q 015510          167 ---STEDIW----AVKLFNSITG-VNQLLF--EGLTRELPILGFI-------------KGVWMVGVIDEIQMPVKETARN  223 (405)
Q Consensus       167 ---t~ed~w----a~klln~i~~-l~~L~~--~G~~REl~V~G~i-------------~G~~v~GIIDeL~~~~~~~~~~  223 (405)
                         ..++.+    ..++..|+.. +...+.  ....||.|+.-.+             ++++|+||||++...++    .
T Consensus      1092 ~~~l~~~~~~~i~~~~i~~f~~s~l~~~~~~a~~v~rE~pf~~~~~~~~~~~~~~~~~~~v~l~G~ID~~~~~~~----~ 1167 (1232)
T 3u4q_A         1092 KELLTEEQKDAIDIEEIVQFFHTEIGGQLIGAKWKDREIPFSLALPAKEIYPDAHEADEPLLVQGIIDCLYETED----G 1167 (1232)
T ss_dssp             TTSSCHHHHHHCCHHHHHGGGGSHHHHHHHSCSEEEEEEEEEEEEEGGGTCSSCCSCCCEEEEEEEEEEEEECSS----C
T ss_pred             cCCCCHHHHhhCCHHHHHHHHcCHHhHHHHhCCccEEECCeeecCchHhhcccccCCCCceEEEEEEEEEEEECC----E
Confidence               001111    2333333332 323332  2378999997766             35999999999987765    5


Q ss_pred             cEEEeecccCCCCCC------C-hhhccchhhHHHHHHHHHHHhhcC
Q 015510          224 PILVDTKTRAQYTLP------A-ESQKRNGRLQLMCYKYMWDNLAAD  263 (405)
Q Consensus       224 l~I~D~KTR~~~~lP------~-~~~~~~~~lQLmlY~~ll~~L~~~  263 (405)
                      ++|+||||++.++-.      . ......-.+||.||+.++..+..-
T Consensus      1168 i~lvDYKTd~~~~~~~~~~~~~~~~~~~~y~~QL~lYa~al~~~~~~ 1214 (1232)
T 3u4q_A         1168 LYLLAYKSDRIEGKFQHGFEGAAPILKKRYETQIQLYTKAVEQIAKT 1214 (1232)
T ss_dssp             EEEEEEECCCCCC----CCTTTHHHHHHHSHHHHHHHHHHHHHHHSS
T ss_pred             EEEEEeCCCCCCCccccccchhHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence            999999999976420      0 123556689999999999998543

>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.24 PDB: 3k70_B*

Probab=96.59  E-value=0.0045  Score=70.36  Aligned_cols=123  Identities=20%  Similarity=0.121  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHHHHhhccc-eeee-ec------cchhHHHHHHHHHHHHHH---------HHhH---cCcEEEEEEEEE
Q 015510          141 KVMKVGRARHAELEKEVTEK-VKVR-VR------STEDIWAVKLFNSITGVN---------QLLF---EGLTRELPILGF  200 (405)
Q Consensus       141 ~am~~Gt~iH~~LE~e~~~~-v~v~-i~------t~ed~wa~klln~i~~l~---------~L~~---~G~~REl~V~G~  200 (405)
                      .....|+.+|..||..-... ...+ +.      .-.+.|...+...|..+.         .|-.   ...-||++++--
T Consensus       947 ~ga~~Gt~lH~~le~~df~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~~~~~t~L~~~~~~l~~~~~~~~~~E~~F~~~ 1026 (1180)
T 1w36_B          947 RGASPGTFLHSLFEDLDFTQPVDPNWVREKLELGGFESQWEPVLTEWITAVLQAPLNETGVSLSQLSARNKQVEMEFYLP 1026 (1180)
T ss_dssp             CSHHHHHHHHHHTTSCCSSSCCCHHHHHHHHHHTTCCGGGHHHHHHHHHHHHSSCSSSSSCCGGGCCGGGEEEEEEEEEE
T ss_pred             CCCCcHHHHHHHHhcCCCCCcccHHHHHHHHHHcCCChHHHHHHHHHHHHHHcCCCCCCCeeHHHCChhhceecccceee
Confidence            46799999999999654321 1100 00      001124433333332211         0111   337899999887


Q ss_pred             EC------------------------------CEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh--------h-
Q 015510          201 IK------------------------------GVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE--------S-  241 (405)
Q Consensus       201 i~------------------------------G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~--------~-  241 (405)
                      ++                              ..+|.|+||-+-..++    +++|+||||-.-..-+..        + 
T Consensus      1027 ~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~g~l~G~IDlvf~~~~----~~~l~DYKtn~lg~~~~~Y~~~~~~~~~ 1102 (1180)
T 1w36_B         1027 ISEPLIASQLDTLIRQFDPLSAGCPPLEFMQVRGMLKGFIDLVFRHEG----RYYLLDYKSNWLGEDSSAYTQQAMAAAM 1102 (1180)
T ss_dssp             ECSCCCHHHHHHHHHHHCSSTTSCCCCCSCCCEEEEEEEEEEEEBSSS----CBCCEEEECCCCCSSGGGSBHHHHHHHH
T ss_pred             cCCCCCHHHHHHHHHHhcccccccccccchhhceeeeeEEEEEEEECC----EEEEEEeCCCCCCCCccccCHHHHHHHH
Confidence            71                              2799999999987643    899999999875432211        1 


Q ss_pred             hccchhhHHHHHHHHHHHhhcCCCCc
Q 015510          242 QKRNGRLQLMCYKYMWDNLAADNFPS  267 (405)
Q Consensus       242 ~~~~~~lQLmlY~~ll~~L~~~~~~~  267 (405)
                      ...--++|+.||...|.++....++-
T Consensus      1103 ~~~rY~lQ~~lY~~AL~r~l~~rv~~ 1128 (1180)
T 1w36_B         1103 QAHRYDLQYQLYTLALHRYLRHRIAD 1128 (1180)
T ss_dssp             HHTTTHHHHHHHHHHHHHHHHHHSSS
T ss_pred             HHCCcHHHHHHHHHHHHHHHhccCCC
Confidence            23445799999999999887655443

>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 c.52.1.25 PDB: 3k70_C*

Probab=96.14  E-value=0.013  Score=66.42  Aligned_cols=135  Identities=9%  Similarity=0.030  Sum_probs=85.6

Q ss_pred             CCccccccCCccccccceeeeeecCCccc---------c----HHHHHHHHHHHHHHHhhccce-ee---------eec-
Q 015510          111 RALSVTDVTDTEWCEKKMEFNLLFGSKKV---------N----KVMKVGRARHAELEKEVTEKV-KV---------RVR-  166 (405)
Q Consensus       111 ~~LSVTdL~~~~WCElq~~Y~l~~g~~~~---------t----~am~~Gt~iH~~LE~e~~~~v-~v---------~i~-  166 (405)
                      ..+|+|+|.++.-|+++|+|+...|....         .    .+..+|+..|+.||..+.... +.         .+. 
T Consensus       830 ~~lS~s~L~~f~r~P~~~f~~~~L~l~~~~~~~~~~d~epf~ld~l~r~~l~~~ll~~~~~~~~~~~~~~~l~~~g~lP~  909 (1122)
T 1w36_C          830 ETVPLETLQRFWAHPVRAFFQMRLQVNFRTEDSEIPDTEPFILEGLSRYQINQQLLNALVEQDDAERLFRRFRAAGDLPY  909 (1122)
T ss_dssp             SCEEHHHHHHHSSSHHHHHHHTTTCCCCCCSCCCCCSSCCSSCCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHTCSCS
T ss_pred             CCcCHHHHHHHHHCHHHHHHHHhcCCccCcccccCCcCCCCCCCchhhhHHHHHHHHHHhcCCCHHHHHHHHHHCCCCCC
Confidence            47999999999999999999998887531         1    489999999999998764221 00         000 


Q ss_pred             -cchhHHHHHHHHHHHHHHHHhHc--CcEEEEEEEEEECCEEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCChhhc
Q 015510          167 -STEDIWAVKLFNSITGVNQLLFE--GLTRELPILGFIKGVWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAESQK  243 (405)
Q Consensus       167 -t~ed~wa~klln~i~~l~~L~~~--G~~REl~V~G~i~G~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~~~~  243 (405)
                       ...+.|..++...+..+......  +......+.-.++|+.+.|.+|+|+  ++      -++||||++..        
T Consensus       910 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~G~~d~i~--~~------g~~~~k~g~~~--------  973 (1122)
T 1w36_C          910 GAFGEIFWETQCQEMQQLADRVIACRQPGQSMEIDLACNGVQITGWLPQVQ--PD------GLLRWRPSLLS--------  973 (1122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEEEEEC--SS------EEEEECSSCCC--------
T ss_pred             ChhhHHHHHHHHHHHHHHHHHHhcccCCCCCcceeeeeCCEEEEEEecccc--CC------eEEEEecCCCC--------
Confidence             11223333443333333222221  2333333433458999999999999  22      39999999751        


Q ss_pred             cchhhHHHHHHHHHHHhh
Q 015510          244 RNGRLQLMCYKYMWDNLA  261 (405)
Q Consensus       244 ~~~~lQLmlY~~ll~~L~  261 (405)
                      ....++.-++++++....
T Consensus       974 ~k~~~~~w~~~L~l~a~~  991 (1122)
T 1w36_C          974 VAQGMQLWLEHLVYCASG  991 (1122)
T ss_dssp             HHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHhcC
Confidence            124566777776666543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	405
d1w36b3	276	Exodeoxyribonuclease V beta chain (RecB), C-termin	97.66

>d1w36b3 c.52.1.24 (B:899-1174) Exodeoxyribonuclease V beta chain (RecB), C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Restriction endonuclease-like
superfamily: Restriction endonuclease-like
family: Exodeoxyribonuclease V beta chain (RecB), C-terminal domain
domain: Exodeoxyribonuclease V beta chain (RecB), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.66  E-value=4.2e-05  Score=71.42  Aligned_cols=66  Identities=15%  Similarity=0.089  Sum_probs=46.7

Q ss_pred             EEEEEEEeEEeCCCCCCCCCcEEEeecccCCCCCCCh---h------hccchhhHHHHHHHHHHHhhcCCCCchhhhhh
Q 015510          204 VWMVGVIDEIQMPVKETARNPILVDTKTRAQYTLPAE---S------QKRNGRLQLMCYKYMWDNLAADNFPSMQFYDF  273 (405)
Q Consensus       204 ~~v~GIIDeL~~~~~~~~~~l~I~D~KTR~~~~lP~~---~------~~~~~~lQLmlY~~ll~~L~~~~~~~~~~~~~  273 (405)
                      .+|+|+||-+-..+    ++++|+||||-.-..-|..   .      ...--.+|+.||...|.++....++-..+.++
T Consensus       162 g~l~G~IDlvf~~~----g~~~llDYKTn~Lg~~~~~Y~~~~l~~~m~~~~Y~lQ~~lY~~AL~R~L~~r~~~y~~~~~  236 (276)
T d1w36b3         162 GMLKGFIDLVFRHE----GRYYLLDYKSNWLGEDSSAYTQQAMAAAMQAHRYDLQYQLYTLALHRYLRHRIADYDYEHH  236 (276)
T ss_dssp             EEEEEEEEEEEBSS----SCBCCEEEECCCCCSSGGGSBHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHSSSCCHHHH
T ss_pred             ceEEEEEEEEEEEC----CEEEEEEeeccccCCCccccCHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhcCCCCHhhc
Confidence            48999999999864    4899999999887654431   1      12335799999999998887654443333333