Citrus Sinensis ID: 007230

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610--
Protein Sequence
MFSLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNVEIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Secondary Structure (PSIPRED)
cccccccccEEEEEHHHHHHHHHHHHHHcccHHHHHHHHcccHHcccccEEEEccHHHcHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccEEEEEEccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEEcccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccEEEcccccccccccccccccHHHHHHHcccccccHHHHHHHHHccccccccccccccccccEEEEcccccccccccccccccccccccccEEEEccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEcHccEEEEHHHHHHHHHHHHHHHccccEEEEEHccEEEEcccccHEEcccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccEEccccEcccccEEEEEEEEEEEEEEEEccccccccccEEEEcccccccccEEccccccccEEEcEcccccccEEEEEEccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHHccccccccccEEEcccccccEEEEEEcccccccccccEEcccccccccccEEEEcccccccccccccccEEEccccHcccccccccccccccccccHHHHHHHHHHHHHHcccccccccccEEEccccHHHccccccccccHHHHHHHccccccccHHHHHHHHcccccccccHHHHHccccEEEEccccccccccccccccccccccccHHEEccccccccccccccHHHcccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mfslfscsdILLVVVPLWCFWWRYflwfsgplRVVHLMQGIWavdqgssyigylpfcLYMEAEDVIDLlasspsgceeennempgrdgepgksdfqpndsekkeddsngesmelnelnveiedgqlieegevgkdvvddsnvnvegtTTVELAETIvesdsrihvqngclevgnrspnhnrmkdvsstsgvkrarmtldeeqpsvHVIYNSLTRASKQKLEELLQQWSEWQaqfgsssndpnegiefgeqtffpairvgkakgpavsFWIDnqtrnqqnknfipsdshgtplydrgyalgltsgdgssnleggleiiddasrcfncgsyshslkecpkprdkdavNNARKQHkskrnqnsasrnpmryyqnsaggkydglrpgaldAETRQLlglgeldpppwlhrmrelgyppgyldsedddqpsgitiyadgeikegqedgeiietgrpaskrkmttefpginapipenaderlwaarpsssdssrdrshhrlnhhsesisrgryheqrwsrdyrddgppgvdpvssyppryggydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldryrddYSREYLSRsmdeydrfrprgrww
Flexible Loop (DISEMBL)
mfslfscsDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLASSPSGCEEENnempgrdgepgksdfqpndsekkeddsngesmELNELNVEIEDGQLIEEGevgkdvvddsnvnvegTTTVELaetivesdsrihVQNGClevgnrspnhnrmkdvsstsgvkrarmtldeeqpsvhVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQtrnqqnknfipsdshgtpLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSyshslkecpkprdkdavnnarkqhkskrnqnsasrnpmRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADgeikegqedgeiietgrpaskrkmttefpginapipenadeRLWAARPSssdssrdrshhrlnhhsesisrgryhEQRWSrdyrddgppgvDPVSSYPPRYGGydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldrYRDDYSReylsrsmdeydrfrprgrww
Low Complexity Region (SEG)
MFSLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNVEIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAArpsssdssrdrshhrlnhhsESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTrgrsysdrdrddyASHGSYSSPYSNRHTsppdydldryrddysreylsrsMDEYDRFRPRGRWW
Disordered region (IsUnstruct)
***LFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLL******************************************************************VVD**NVNVEGTTTVELAETIVESDSRIHVQNGCL***********************************HVIYNSL**********LLQQWSEW**************IEFGEQTFFPAIRVGKAKGPAVSFWIDN******************PLYDRGYALGLT*******LEGGLEIIDDASRCFNCGSY*************************************************************QLLGLGELDPPPWLHRMRELGY********************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
**SLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVID************************************************************************************************************************************EEQPSVHVIYNSLTRASKQKLEELLQ******************************IRVGKAKGPAVSFWIDNQTRN***********HGTPLYDRG************************SRCFNCGSYSHSLKECPKPRDKDAVNNARK*********************SAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE**********************TTEFPGINAPIPENADERLWA**************************************************************************************************************************************
Disordered Region (DISEMBL)
MFSLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLASSP*************************************SMELNELNVEIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPNHNR**********KRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHS*****************************SRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW********************************QRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYS****************RDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Disordered Region (DISPRO)
*FSLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLAS*********************************************LNVEIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS***DPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG***************RPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHH*********************GPPGVDPVSSYPPRYGGYDYYSS**********************************************************************
Transmembrane Helix (TMHMM)
iHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFSLFSCSDILLVVVPLWCFWWRYFLWFSGPLRVVHLMQGIWAVDQGSSYIGYLPFCLYMEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNVEIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	612	2.2.26 [Sep-21-2011]
Q6DD45	743	Zinc finger CCHC domain-c	N/A	no	0.251	0.207	0.349	2e-19
Q5F3D1	613	Zinc finger CCHC domain-c	yes	no	0.292	0.292	0.309	3e-18
Q9CYA6	709	Zinc finger CCHC domain-c	yes	no	0.282	0.244	0.322	3e-18
Q6NZY4	707	Zinc finger CCHC domain-c	yes	no	0.287	0.248	0.304	3e-17
Q5R789	704	Zinc finger CCHC domain-c	yes	no	0.287	0.25	0.304	4e-17
Q2PE14	553	Zinc finger CCHC domain-c	yes	no	0.215	0.238	0.348	4e-14
P34656	453	Uncharacterized protein Z	no	no	0.138	0.187	0.294	0.0005

>sp|Q6DD45|ZCHC8_XENLA Zinc finger CCHC domain-containing protein 8 OS=Xenopus laevis GN=zcchc8 PE=2 SV=1

 Score = 98.2 bits (243), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 91/166 (54%), Gaps = 12/166 (7%)

Query: 313 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 368
           G EI   A R    CFNCGS  H +++CPKPRD+  +N  RK+      + + ++N  RY
Sbjct: 201 GQEIQVKAKRPKPCCFNCGSEEHQMRDCPKPRDQAHINMKRKEFLDACGE-AGNQNQQRY 259

Query: 369 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 428
           +      ++   +PG +  E ++ LG+ + + PP+++RMRELGYPPG+L  E + + SG+
Sbjct: 260 HAEEVEERFGKYKPGVISEELQEALGIMDKNLPPFIYRMRELGYPPGWL-KEAELENSGL 318

Query: 429 TIYADGEIKEGQEDGEIIETGRPASKR-----KMTTEFPGINAPIP 469
           ++Y DG+ +    DGEI +    A K           +PG N   P
Sbjct: 319 SLY-DGKERLDASDGEIEDRDTEAKKHVSYDVSKLVNYPGFNISAP 363

Xenopus laevis (taxid: 8355)

>sp|Q5F3D1|ZCHC8_CHICK Zinc finger CCHC domain-containing protein 8 OS=Gallus gallus GN=ZCCHC8 PE=2 SV=1

 Score = 94.0 bits (232), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 57/184 (30%), Positives = 90/184 (48%), Gaps = 5/184 (2%)

Query: 321 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 380
           S CFNCGS  H +K+CPKPR+   ++  RK+      + S      RY+      ++   
Sbjct: 126 SHCFNCGSEEHQIKDCPKPRNAARISEKRKEFMEAYGEASNQNFQQRYHAEEVEERFGKF 185

Query: 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ 440
           +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+     
Sbjct: 186 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKDDNET 243

Query: 441 EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL-NH 497
           ED   ++             +PG N   P    DE +++ + P      +D   H L N 
Sbjct: 244 EDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDEWQIFGSIPMQPSQQKDVFAHYLSNF 303

Query: 498 HSES 501
           H+ S
Sbjct: 304 HAPS 307

Gallus gallus (taxid: 9031)

>sp|Q9CYA6|ZCHC8_MOUSE Zinc finger CCHC domain-containing protein 8 OS=Mus musculus GN=Zcchc8 PE=2 SV=3

 Score = 94.0 bits (232), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 60/186 (32%), Positives = 93/186 (50%), Gaps = 13/186 (6%)

Query: 323 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 382
           CFNCGS  H +KECP PR+   ++  RK++     + S      RY+      ++   +P
Sbjct: 232 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEASGQSFQQRYHAEEVEERFGRFKP 291

Query: 383 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-----ADGEIK 437
           G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y     ADGE  
Sbjct: 292 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALYDGNDDADGET- 349

Query: 438 EGQEDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL 495
              E GEI          K+   +PG N   P    DE R++ + P  +   +D     L
Sbjct: 350 ---ETGEIQNKNVTYDLSKLVN-YPGFNISTPRGIPDEWRMFGSIPMQACQQKDVFASYL 405

Query: 496 NHHSES 501
           N + +S
Sbjct: 406 NSNIQS 411

May be involved in pre-mRNA splicing.

Mus musculus (taxid: 10090)

>sp|Q6NZY4|ZCHC8_HUMAN Zinc finger CCHC domain-containing protein 8 OS=Homo sapiens GN=ZCCHC8 PE=1 SV=2

 Score = 90.5 bits (223), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 92/184 (50%), Gaps = 8/184 (4%)

Query: 313 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 368
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 215 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 274

Query: 369 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 428
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 275 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 333

Query: 429 TIYADGEIKEGQ-EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSD 485
            +Y   +  +G+ E GEI +             +PG N   P    DE R++ + P  + 
Sbjct: 334 ALYDGKDGTDGETEVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIPMQAC 393

Query: 486 SSRD 489
             +D
Sbjct: 394 QQKD 397

May be involved in pre-mRNA splicing.

Homo sapiens (taxid: 9606)

>sp|Q5R789|ZCHC8_PONAB Zinc finger CCHC domain-containing protein 8 OS=Pongo abelii GN=ZCCHC8 PE=2 SV=1

 Score = 90.5 bits (223), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 92/184 (50%), Gaps = 8/184 (4%)

Query: 313 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 368
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 213 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 272

Query: 369 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 428
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 273 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 331

Query: 429 TIYADGEIKEGQ-EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSD 485
            +Y   +  +G+ E GEI +             +PG N   P    DE R++ + P  + 
Sbjct: 332 ALYDGKDGTDGETEVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIPMQAC 391

Query: 486 SSRD 489
             +D
Sbjct: 392 QQKD 395

May be involved in pre-mRNA splicing.

Pongo abelii (taxid: 9601)

>sp|Q2PE14|ZCHC8_DROME Zinc finger CCHC domain-containing protein 8 homolog OS=Drosophila melanogaster GN=CG4622 PE=1 SV=2

 Score = 80.5 bits (197), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 17/149 (11%)

Query: 321 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 380
           S CFNCG   HSL++C KPR+   +  ARK+  S+           RY+ ++   ++  +
Sbjct: 183 SSCFNCGDTEHSLRDCTKPRNNSRITRARKKMTSRTE---------RYHVDTE-QRFGHI 232

Query: 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-ADGE--IK 437
           RPG +  +TR  +G      P   +RMR LGYPP +L+ E   Q SGI ++ ADG    K
Sbjct: 233 RPGKISTKTRHAMGYSRGQLPFIFYRMRVLGYPPAWLE-EAKVQSSGIALFNADGSEVTK 291

Query: 438 EGQEDGEIIETGRPASKRKMTTEFPGINA 466
             +E+GE        +K     E+PG N 
Sbjct: 292 SDEEEGESETFKYDVNK---IVEYPGFNV 317

Drosophila melanogaster (taxid: 7227)

>sp|P34656|YOTA_CAEEL Uncharacterized protein ZK632.11 OS=Caenorhabditis elegans GN=ZK632.11 PE=4 SV=1

 Score = 46.6 bits (109), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 17/102 (16%)

Query: 323 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG---GKYDG 379
           CFNC    H+L++C + +D   ++  +++    R          R + N  G    +   
Sbjct: 111 CFNCDG-EHNLRDCTQRKDFRRISRKKRESGDGRQ---------RVFYNDVGISKQREKH 160

Query: 380 LRPGALDAETRQLLGLGELDPPPWLHRMREL----GYPPGYL 417
            +PG +    R  LGL   D P  ++RMR L    GYPPG+L
Sbjct: 161 FKPGVISDRLRAALGLRGNDIPEHIYRMRRLGLIDGYPPGWL 202

Caenorhabditis elegans (taxid: 6239)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	612
359488397	575	PREDICTED: uncharacterized protein LOC10	0.797	0.848	0.599	1e-160
255570019	693	nucleic acid binding protein, putative [	0.897	0.792	0.508	1e-158
298204384	1165	unnamed protein product [Vitis vinifera]	0.767	0.403	0.572	1e-148
224079886	531	predicted protein [Populus trichocarpa]	0.818	0.943	0.539	1e-142
307136480	610	nucleic acid binding protein [Cucumis me	0.789	0.791	0.546	1e-138
449447474	610	PREDICTED: uncharacterized protein LOC10	0.789	0.791	0.550	1e-137
449525630	610	PREDICTED: uncharacterized protein LOC10	0.789	0.791	0.548	1e-137
356573637	660	PREDICTED: uncharacterized protein LOC10	0.800	0.742	0.528	1e-136
18421775	532	zinc finger CCHC domain-containing prote	0.759	0.874	0.519	1e-124
224127396	289	predicted protein [Populus trichocarpa]	0.470	0.996	0.730	1e-122

>gi|359488397|ref|XP_002279557.2| PREDICTED: uncharacterized protein LOC100247996 [Vitis vinifera]

 Score =  570 bits (1470), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 308/514 (59%), Positives = 367/514 (71%), Gaps = 26/514 (5%)

Query: 60  MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
           M  E++I+  A S S C  E+NE+   + EPG++D   ++SE KED  N ES+  N+++ 
Sbjct: 1   MGTEELINPPAPSGSVCGSEDNELHNSNPEPGEADSSSSNSEVKEDKLNIESLMQNKVDF 60

Query: 120 EIEDGQLIEEGEVGKDVVDD---SNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRS 176
           E  D +L     + KD+VD    S  +VE T T+ + + I  S S +  +NGCL   +  
Sbjct: 61  EKVDSRLTPGVVLDKDLVDKQLTSQGSVEVTETIVVTKLINSSSSGVPTENGCLTAPDEG 120

Query: 177 PNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS 236
           P  N M D +S SGVKRAR+T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ S
Sbjct: 121 PIGNHMIDGTSISGVKRARLTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVS 180

Query: 237 SSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRG 296
           SS+DP   ++ GE+T+FPA+ VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG
Sbjct: 181 SSHDPKGQLDSGEKTYFPALHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRG 240

Query: 297 YALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKR 356
           +ALGL S DG S  EG LEIID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+R
Sbjct: 241 FALGLVSEDGQSKPEGALEIID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRR 299

Query: 357 NQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 416
           NQN  SRNP RYYQNS GG+YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGY
Sbjct: 300 NQNPGSRNPTRYYQNSPGGRYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGY 359

Query: 417 LDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERL 476
           LD E+++QPSGITIYAD E+K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER 
Sbjct: 360 LDPEEEEQPSGITIYADEEVKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERR 419

Query: 477 WAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVD-----PVSSYP 531
           WAA          R H RLNH  E  SR   HEQRWSRDYRDDGP   D     P SSYP
Sbjct: 420 WAA--------GSRPHRRLNHSYEPSSRRNSHEQRWSRDYRDDGPCDSDMEISPPRSSYP 471

Query: 532 PRYGGYD-YYSSHS--------RSPTRGRSYSDR 556
           PR+GG D  Y+S+S        RSP  GRS SDR
Sbjct: 472 PRHGGIDSSYTSYSTRGNIPRPRSPNFGRSLSDR 505

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570019|ref|XP_002525972.1| nucleic acid binding protein, putative [Ricinus communis] gi|223534704|gb|EEF36396.1| nucleic acid binding protein, putative [Ricinus communis]

 Score =  566 bits (1458), Expect = e-158,   Method: Compositional matrix adjust.
 Identities = 330/649 (50%), Positives = 411/649 (63%), Gaps = 100/649 (15%)

Query: 56  FCLYMEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESM--- 112
             L ME ED+I L  S+ SG   ENNE+   +  PG+++ QP++ E +E   +G +M   
Sbjct: 35  LILSMETEDMISLPDSTNSGDGIENNELDQPESGPGEAESQPSNYEAEEGMIDGHNMGLN 94

Query: 113 -----------------------------------ELNELNVEIEDGQLIEEGEVGKDVV 137
                                              ELNE NV+ E+   ++E  +G+++V
Sbjct: 95  EVDIGNKTETSDPEKLELNQNDFGAEECTKGSKDSELNEENVKTEECSAVQEN-LGENLV 153

Query: 138 D----------DSNVNVEGTTTVELAETIVESDS-------------------------- 161
           D          D     +G    E A+ +VE+D                           
Sbjct: 154 DAVTEEDTIDRDYLFLNQGVVREEGAQCLVETDVDMDLVDSPVMQVNIEVAEAVAVSGNL 213

Query: 162 -----RIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRAS 216
                R++ QN CL+  N S   N M      SGVKRAR+  +E+QPSVHV YNSLTRAS
Sbjct: 214 SSFGFRLNAQNSCLDTQNESLIQNHMMKGGHVSGVKRARIAYNEQQPSVHVTYNSLTRAS 273

Query: 217 KQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRN 276
           K+KLEELLQQWSEW  Q GSSS D NE +E GE+T+FPA+ VG  K  AVSFWI+NQT+ 
Sbjct: 274 KRKLEELLQQWSEWHVQRGSSSQDLNEVLESGEETYFPALCVGTEKSSAVSFWIENQTKK 333

Query: 277 QQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKEC 336
           Q N + I SDS   PLYDRG+A+GLTS DG SN+EGGLEI+++A+RCFNCGSYSH+LKEC
Sbjct: 334 QLNNDLISSDSDSVPLYDRGFAIGLTSTDGPSNVEGGLEIVNEAARCFNCGSYSHALKEC 393

Query: 337 PKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLG 396
           PKPR+  AVNNARKQHKSKRNQN+ SRN  RYYQ+S+GGKY+GL+PG+LDAETR+LLGLG
Sbjct: 394 PKPRNNAAVNNARKQHKSKRNQNAGSRNGTRYYQSSSGGKYEGLKPGSLDAETRRLLGLG 453

Query: 397 ELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRK 456
           ELDPPPWL+RMRELGYPPGYLD +D+DQPSGI I+ADG+IK+ QEDGEIIET  P   RK
Sbjct: 454 ELDPPPWLNRMRELGYPPGYLDPDDEDQPSGIIIFADGDIKDEQEDGEIIETENPDPPRK 513

Query: 457 MTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDY 516
           M  EFPGINAPIPENADERLW   PSS +S R+R   + +H SE+ISR  +HEQR SRD 
Sbjct: 514 MAVEFPGINAPIPENADERLWETGPSSYNSFRNRPFRKSDHSSETISRWHHHEQRGSRDS 573

Query: 517 RDDGPPGVDPV---SSYPPRYGGYDYYSS----HSRSPTRGRSYSDRDR------DDYAS 563
            D+GPPGVDPV   SS+PPRYG YD   S       + +  RS S++ R      +D+AS
Sbjct: 574 IDEGPPGVDPVFSPSSFPPRYGNYDSSYSSDSLRGSTASLPRSRSEKGRRSPVVYEDFAS 633

Query: 564 HGSYSSPYSNRHTSPPDYDLDRY------RDDYSR-EYLSRSMDEYDRF 605
           H S      N+ +SP D D DR       R +YSR +Y  RS+DE+DR+
Sbjct: 634 HSSSPFSSLNKRSSPKDNDSDRLESETDERWNYSRLDYSYRSIDEHDRY 682

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298204384|emb|CBI16864.3| unnamed protein product [Vitis vinifera]

 Score =  533 bits (1372), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 289/505 (57%), Positives = 347/505 (68%), Gaps = 35/505 (6%)

Query: 60   MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
            M  E++I+  A S S C  E+NE+   + EPG++D   ++SE KED  N ES+  N+++ 
Sbjct: 591  MGTEELINPPAPSGSVCGSEDNELHNSNPEPGEADSSSSNSEVKEDKLNIESLMQNKVDF 650

Query: 120  EIEDGQLIEEGEVGKDVVDD---SNVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRS 176
            E  D +L     + KD+VD    S  +VE T T+ + + I  S S +  +NGCL   +  
Sbjct: 651  EKVDSRLTPGVVLDKDLVDKQLTSQGSVEVTETIVVTKLINSSSSGVPTENGCLTAPDEG 710

Query: 177  PNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS 236
            P  N M D +S SGVKRAR+T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ S
Sbjct: 711  PIGNHMIDGTSISGVKRARLTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVS 770

Query: 237  SSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRG 296
            SS+DP   ++ GE+T+FPA+ VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG
Sbjct: 771  SSHDPKGQLDSGEKTYFPALHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRG 830

Query: 297  YALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKR 356
            +ALGL S DG S  EG LEIID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+R
Sbjct: 831  FALGLVSEDGQSKPEGALEIID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRR 889

Query: 357  NQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 416
            NQN  SRNP RYYQNS GG+YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGY
Sbjct: 890  NQNPGSRNPTRYYQNSPGGRYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGY 949

Query: 417  LDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERL 476
            LD E+++QPSGITIYAD E+K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER 
Sbjct: 950  LDPEEEEQPSGITIYADEEVKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERR 1009

Query: 477  WAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGG 536
            WAA          R H RLNH  E  SR   HEQR           G+D           
Sbjct: 1010 WAA--------GSRPHRRLNHSYEPSSRRNSHEQRHG---------GID---------SS 1043

Query: 537  YDYYSSHS-----RSPTRGRSYSDR 556
            Y  YS+       RSP  GRS SDR
Sbjct: 1044 YTSYSTRGNIPRPRSPNFGRSLSDR 1068

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224079886|ref|XP_002305958.1| predicted protein [Populus trichocarpa] gi|222848922|gb|EEE86469.1| predicted protein [Populus trichocarpa]

 Score =  513 bits (1321), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 300/556 (53%), Positives = 369/556 (66%), Gaps = 55/556 (9%)

Query: 80  NNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV----EIEDGQLIE--EGEVG 133
           N+E+   D     S  Q   +E KE   + ES+ELNE  V     +++G+ +E  EG VG
Sbjct: 5   NDELLKSDLGLSDSHSQLGSNETKESKDDEESVELNEGAVGNDERMKNGESVELNEGAVG 64

Query: 134 KDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGC-LEVG-------NRSPNHNRMKDV 185
            D        ++   +VEL E  V ++       G  L VG          P ++ +K  
Sbjct: 65  NDE------RMKNGESVELNEGAVGNNEGTKNGEGFELNVGVIGNDEVTVDPGYSALK-- 116

Query: 186 SSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGI 245
           ++ SGVKR R+T +EEQPSVHV+YNSLTRASK+KLEELLQQWSEW AQ  SSS+D +E +
Sbjct: 117 ANVSGVKRKRITYNEEQPSVHVMYNSLTRASKKKLEELLQQWSEWHAQQNSSSHDSDEML 176

Query: 246 EFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGD 305
           + GE T+FPA+R+G  K  AV+FWI+NQTR QQ+   IP  S+  PLYDRGYALGLTS D
Sbjct: 177 QSGEDTYFPALRIGMVKSSAVTFWIENQTRKQQDNAIIPLQSNYVPLYDRGYALGLTSAD 236

Query: 306 GSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNP 365
           G  N+E GLEI+ DA+RC+NC SY+HSLKECPKPRD  AVNNARKQHK KRNQNS+SRNP
Sbjct: 237 GPINIERGLEIVGDAARCYNCASYNHSLKECPKPRDNAAVNNARKQHKFKRNQNSSSRNP 296

Query: 366 MRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQP 425
            RYYQ+S+GGKYDGL+PG+LD ET++LLGLGELDPPPWL+RM+ELGYPPGYLD +D+DQP
Sbjct: 297 TRYYQSSSGGKYDGLKPGSLDTETQKLLGLGELDPPPWLNRMQELGYPPGYLDPDDEDQP 356

Query: 426 SGITIYADGEIKEGQEDGEIIETGRPAS-KRKMTTEFPGINAPIPENADERLWAARPSSS 484
           SGITI+ADG++ E QEDGEI ET  P   +RKM+ EFPGINA IPENAD+RLW   P+SS
Sbjct: 357 SGITIFADGDVNEEQEDGEITETDPPPEPQRKMSVEFPGINAAIPENADQRLWEVGPTSS 416

Query: 485 DSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPV-----SSYPPRYGGYDY 539
           D  R RS HRL + SE+  R  +HEQ   R YRDDGPPGVD V     SSYPPRY G+  
Sbjct: 417 DPWRHRSQHRLKYSSEATGRWHHHEQ---RQYRDDGPPGVDSVFSPSMSSYPPRY-GHYD 472

Query: 540 YSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYR-----DDYSREY 594
            S  S SP        RD          +  +  + +SP D    RYR     DD+  +Y
Sbjct: 473 SSYSSDSP--------RD---------LTPAFGRKRSSPQDIGSARYRTDNSPDDFDTDY 515

Query: 595 LSRSMDEYDRFRPRGR 610
             R    +DR R R R
Sbjct: 516 SYRDY-SFDRHRHRSR 530

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307136480|gb|ADN34281.1| nucleic acid binding protein [Cucumis melo subsp. melo]

 Score =  498 bits (1282), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 283/518 (54%), Positives = 353/518 (68%), Gaps = 35/518 (6%)

Query: 60  MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
           ME ED+ +L   S +    EN+E+        K++  P +S       + E ++ NEL+ 
Sbjct: 82  MEIEDLNNLPDFSKTRSRSENSEILS------KAEDLPVNSADGNILPSNEPLQQNELHT 135

Query: 120 EIEDGQLIEEGEVGKDVVDDSNVNVEGTTTVELAETIVESDSRIHVQNGC-LEVGNRSPN 178
             ED   +E     KD+VD+S+ +  G     +    ++ +    + +G  +E G+ + +
Sbjct: 136 RYEDVCHVESQNFQKDLVDNSSFSKTGGQLTVMNGVSIDFN---ELNSGAPMENGSATSH 192

Query: 179 HNRMKDVSSTSGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFG 235
           H+    +S   GVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ G
Sbjct: 193 HHGGPRIS---GVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQG 249

Query: 236 SSSNDP--NEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLY 293
           S S D    E +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q + F+P D +  PLY
Sbjct: 250 SLSRDDKDTENLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQTFVPIDDNSVPLY 308

Query: 294 DRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHK 353
           DRG+ LGLTS + SSN+EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K
Sbjct: 309 DRGFTLGLTSANDSSNVEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NK 366

Query: 354 SKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYP 413
            K+  NSASRN  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYP
Sbjct: 367 YKKQHNSASRNSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYP 426

Query: 414 PGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENAD 473
           PGYLD ED+DQPSGITIYAD +  E QEDGEI E      ++KM+ EFPGINAPIPENAD
Sbjct: 427 PGYLDPEDEDQPSGITIYADEKTDE-QEDGEITEAEYRKPQKKMSVEFPGINAPIPENAD 485

Query: 474 ERLWAARPSSSDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP- 531
           ERLWA  PSSS   R+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P 
Sbjct: 486 ERLWAPEPSSSGLPRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPS 545

Query: 532 --PRYGGYDY-YSSH--------SRSPTRGRSYSDRDR 558
             PRYGG+D+ Y S         SRSP  GR +SDR R
Sbjct: 546 FTPRYGGHDFSYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447474|ref|XP_004141493.1| PREDICTED: uncharacterized protein LOC101212144 [Cucumis sativus]

 Score =  496 bits (1278), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 285/518 (55%), Positives = 351/518 (67%), Gaps = 35/518 (6%)

Query: 60  MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
           ME ED+ +L   S +    EN+E+  +  +       P +S       + E ++ NEL+ 
Sbjct: 82  MEIEDLNNLPDFSKTRSRSENSEILSKAAD------LPVNSADGNILPSSELLQQNELHT 135

Query: 120 EIEDGQLIEEGEVGKDVVDDSN-VNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPN 178
             ED   +E  +  KD+VD+S+ +   G  TV    +I   D         +E G+ + +
Sbjct: 136 RYEDVCHVESKKFQKDLVDNSSFLKTGGQLTVMNGVSI---DFNELNSGAPMENGSATSH 192

Query: 179 HNRMKDVSSTSGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFG 235
           H+    +S   GVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ G
Sbjct: 193 HHGGPRIS---GVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQG 249

Query: 236 SSSNDP--NEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLY 293
           S S D    E +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLY
Sbjct: 250 SLSCDDKDTENLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLY 308

Query: 294 DRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHK 353
           DRG+ LGLTS + SSN EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K
Sbjct: 309 DRGFTLGLTSANDSSNAEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NK 366

Query: 354 SKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYP 413
            K+  NSASRN  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYP
Sbjct: 367 YKKQHNSASRNSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYP 426

Query: 414 PGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENAD 473
           PGYLD ED+DQPSGITIYAD +  E QEDGEI E      ++K + EFPGINAPIPENAD
Sbjct: 427 PGYLDPEDEDQPSGITIYADEKTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENAD 485

Query: 474 ERLWAARPSSSDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP- 531
           ERLWA  PS+S  SR+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P 
Sbjct: 486 ERLWAPEPSNSGLSRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPS 545

Query: 532 --PRYGGYDY-YSSH--------SRSPTRGRSYSDRDR 558
             PRYGG+D+ Y S         SRSP  GR +SDR R
Sbjct: 546 FTPRYGGHDFSYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449525630|ref|XP_004169819.1| PREDICTED: uncharacterized protein LOC101230973 [Cucumis sativus]

 Score =  495 bits (1275), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 284/518 (54%), Positives = 350/518 (67%), Gaps = 35/518 (6%)

Query: 60  MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
           ME ED+ +L   S +    EN+E+  +  +       P +S       + E ++ NE + 
Sbjct: 82  MEIEDLNNLPDFSKTRSRSENSEILSKAAD------LPVNSADGNILPSSEPLQQNEFHT 135

Query: 120 EIEDGQLIEEGEVGKDVVDDSN-VNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPN 178
             ED   +E     KD+VD+S+ +   G  TV    +I   D         +E G+ + +
Sbjct: 136 RYEDVCHVESKNFQKDLVDNSSFLKTGGQLTVMNGVSI---DFNELNSGAPMENGSATSH 192

Query: 179 HNRMKDVSSTSGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFG 235
           H+    +S   GVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ G
Sbjct: 193 HHGGPRIS---GVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQG 249

Query: 236 SSSNDP--NEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLY 293
           S S D    E +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLY
Sbjct: 250 SLSCDDKDTENLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLY 308

Query: 294 DRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHK 353
           DRG+ LGLTS + SSN+EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K
Sbjct: 309 DRGFTLGLTSANDSSNVEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NK 366

Query: 354 SKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYP 413
            K+  NSASRN  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYP
Sbjct: 367 YKKQHNSASRNSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYP 426

Query: 414 PGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENAD 473
           PGYLD ED+DQPSGITIYAD +  E QEDGEI E      ++K + EFPGINAPIPENAD
Sbjct: 427 PGYLDPEDEDQPSGITIYADEKTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENAD 485

Query: 474 ERLWAARPSSSDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP- 531
           ERLWA  PS+S  SR+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P 
Sbjct: 486 ERLWAPEPSNSGLSRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPS 545

Query: 532 --PRYGGYDY-YSSH--------SRSPTRGRSYSDRDR 558
             PRYGG+D+ Y S         SRSP  GR +SDR R
Sbjct: 546 FTPRYGGHDFSYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356573637|ref|XP_003554964.1| PREDICTED: uncharacterized protein LOC100805423 [Glycine max]

 Score =  492 bits (1267), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 281/532 (52%), Positives = 352/532 (66%), Gaps = 42/532 (7%)

Query: 107 SNGESMELNELNVEIEDGQLIEE-----GEVGKDVVDDSNV----NVEGTTTVELAETIV 157
           SN  S+E   + +++E  + + E       +G D ++  N+      +    ++L     
Sbjct: 128 SNITSVEEKRVCLDMEGDEHMNEVPSENSNLGSDSLEKENILEDEKEDLQDGLKLKVVTE 187

Query: 158 ESDSRIHVQNGCLEVGNRSPNHNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASK 217
           E    +  +NGC+ + + S   +     +S SG KRAR+T+DE QPSVH  YNSLTRAS+
Sbjct: 188 EVSGGLLAENGCISLEDGSLKRSLETVGTSVSGAKRARITVDEYQPSVHFTYNSLTRASR 247

Query: 218 QKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQ 277
           QKL+ELLQ+WS W A+  SSS+D +E +E GE+TFFPA+ VG  K  AVSFW++NQTRN 
Sbjct: 248 QKLQELLQKWSAWHAKHVSSSSDASEVLESGEETFFPALHVGLEKTSAVSFWMENQTRND 307

Query: 278 QNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECP 337
           +NK+FIP   +  PLYDRGYALGLTS DGSSN++GGLEIID A+RCFNCGSY+HSL+ECP
Sbjct: 308 KNKDFIPLADNTVPLYDRGYALGLTSADGSSNVDGGLEIIDAAARCFNCGSYNHSLRECP 367

Query: 338 KPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGE 397
           +PRD  AVNNAR + KS+RNQNS+SR+P RYYQNS  GKYDGLRPG+LD  TR+LLGL E
Sbjct: 368 RPRDNIAVNNARDKLKSRRNQNSSSRHPTRYYQNSPAGKYDGLRPGSLDDATRKLLGLRE 427

Query: 398 LDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKM 457
           LDPPPWL+RMRELGYPPGYLD +++DQPSGITI+ D EI + QEDGEI+E      KRK 
Sbjct: 428 LDPPPWLNRMRELGYPPGYLDVDNEDQPSGITIFTDSEIAD-QEDGEIMEANASKPKRKK 486

Query: 458 TTEFPGINAPIPENADERLWAAR--PSSSDSSRDRS--HHRLNHHSESISRGRYHEQRWS 513
           T +FPGINAPIPE ADERLW  R  PSSSD SR+ S   HR N+ ++  SRG + E R  
Sbjct: 487 TVKFPGINAPIPEKADERLWGTRAGPSSSDISRNLSLPQHRSNYSTDYGSRGYHREHRLG 546

Query: 514 RDYRDDGPPGVDP-----VSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYS 568
            D RD+GPPG DP     + S+ PR+GG+D   S  RSP+  RS SDR R       S S
Sbjct: 547 -DLRDEGPPG-DPGHSSFMFSFHPRFGGHD---SALRSPSMARSQSDRSRSPMHDEES-S 600

Query: 569 SPY---------SNRHTSPPDYDLDRYRD--------DYSREYLSRSMDEYD 603
            P+         S RH SP D D  R           D  R + SR MD +D
Sbjct: 601 MPFSFHSLHYSSSERHFSPLDRDSGRLGSWTSESMYYDRDRVFSSRFMDRFD 652

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18421775|ref|NP_568558.1| zinc finger CCHC domain-containing protein 8 [Arabidopsis thaliana] gi|16604587|gb|AAL24150.1| unknown protein [Arabidopsis thaliana] gi|20465897|gb|AAM20101.1| unknown protein [Arabidopsis thaliana] gi|332006957|gb|AED94340.1| zinc finger CCHC domain-containing protein 8 [Arabidopsis thaliana]

 Score =  452 bits (1164), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 271/522 (51%), Positives = 331/522 (63%), Gaps = 57/522 (10%)

Query: 60  MEAEDVIDLLASSPSGCEEENNEMPGRDGEPGKSDFQPNDSEKKEDDSNGESMELNELNV 119
           ME EDV+D+ ASS  G E + N +   +G P  +    ND    E+      ++L E N+
Sbjct: 1   METEDVLDIPASSNFGSEVKKNSLESGNGSPEANSLVGND----ENVKGNLDLDLTEENL 56

Query: 120 EIEDGQLIEEGEVGKDVVDDS-NVNVEGTTTVELAETIVESDSRIHVQNGCLEVGNRSPN 178
            I  GQ  E GE+  + V D  N +VE           V  D ++ +Q   L        
Sbjct: 57  RIVGGQ--ESGEILTEQVSDVFNASVES----------VAVDEKLGIQKETLV------- 97

Query: 179 HNRMKDVSSTSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSS 238
           H+   DVSS +GVKR R + DE+QP+VHV Y  LTRASKQKLE LLQ+WSEW+A+  S +
Sbjct: 98  HSTTLDVSSKAGVKRPRTSYDEQQPTVHVTYKHLTRASKQKLESLLQKWSEWEAENTSLA 157

Query: 239 NDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYA 298
            D  +  E GE+T FPAIRVG  K  +VSFWIDNQT ++  ++F+  +S  TPLYDR +A
Sbjct: 158 QDQEQLFESGEETCFPAIRVGLQKTSSVSFWIDNQTGHKPLEDFVLVESSTTPLYDRKFA 217

Query: 299 LGLTSGDGSSNLEGGLEII-DDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRN 357
           +GL S DGS N+EGGLEII DD  RCFNCG YSHSL+ECP+P D+ AVN+ARK  KSKRN
Sbjct: 218 IGLNSADGSRNVEGGLEIIDDDPPRCFNCGGYSHSLRECPRPFDRSAVNSARKLQKSKRN 277

Query: 358 QNSAS-RNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 416
           QNS+  R P RYYQ +  GKYDGL+PG LDAETRQLL LGELDPPPWL+RMRE+GYPPGY
Sbjct: 278 QNSSGPRLPSRYYQKTQTGKYDGLKPGTLDAETRQLLNLGELDPPPWLNRMREIGYPPGY 337

Query: 417 LDSEDDDQPSGITIYA---DGEIKEGQEDGEIIETGR--PASKRKMTTEFPGINAPIPEN 471
           L  E DD  SGITI+    +   +   EDGEI+E     P  + K T EFPGINAP PEN
Sbjct: 338 LAPE-DDHLSGITIFGEEVETREEIESEDGEILEKANHPPEPQMKKTVEFPGINAPFPEN 396

Query: 472 ADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSR--DYRDDGPPGVDPVSS 529
           ADE LW A PS  +SSR                GR+ +Q+ SR  DYRDDGP GV+P SS
Sbjct: 397 ADEWLWEAAPSHRNSSRS---------------GRWQQQKTSRGHDYRDDGPLGVEP-SS 440

Query: 530 YPPRYGG-YDY------YSSHSRSPTRGRSYSDRDRDDYASH 564
           YPPRYG  YDY      Y S SRSP   RS S+R + DY+S+
Sbjct: 441 YPPRYGSRYDYGYGSNEYGSRSRSPGIDRSLSERSKRDYSSY 482

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127396|ref|XP_002329267.1| predicted protein [Populus trichocarpa] gi|222870721|gb|EEF07852.1| predicted protein [Populus trichocarpa]

 Score =  446 bits (1147), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 211/289 (73%), Positives = 245/289 (84%), Gaps = 1/289 (0%)

Query: 189 SGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFG 248
           SGVKR RM  DE+QPSVHV+YNSLTR+ KQKLEELLQQWSEW AQ  +SS+D NE ++ G
Sbjct: 1   SGVKRKRMAYDEQQPSVHVMYNSLTRSGKQKLEELLQQWSEWHAQ-QNSSHDSNEMLQSG 59

Query: 249 EQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSS 308
           E T+FPA+RVG  K  AVSFWI+NQ R QQ+ + I   S+  PLYDRGY LGLTS DG  
Sbjct: 60  EDTYFPALRVGMEKSSAVSFWIENQARKQQDNDLILQHSNFVPLYDRGYVLGLTSADGPI 119

Query: 309 NLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 368
           N+EGGLEI+D A+RCFNCG+Y+HSLKECPKPRD  AVNNARKQHK KRNQNS+SRNP RY
Sbjct: 120 NVEGGLEIVDAAARCFNCGAYNHSLKECPKPRDNAAVNNARKQHKFKRNQNSSSRNPTRY 179

Query: 369 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 428
           YQ+S+GGKYDGL+PG+LD ETRQLLGLGELDPPPWL+RMRELGYPPGYLD +D+DQPSGI
Sbjct: 180 YQSSSGGKYDGLKPGSLDTETRQLLGLGELDPPPWLNRMRELGYPPGYLDPDDEDQPSGI 239

Query: 429 TIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 477
           TI+ DG+++E QEDGEI+ET  P   RKM+ EFPGINAPIPENA++R W
Sbjct: 240 TIFDDGDVEEEQEDGEIMETDHPEPPRKMSVEFPGINAPIPENANQRFW 288

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	612
pfam04046	48	pfam04046, PSP, PSP	2e-14
smart00581	54	smart00581, PSP, proline-rich domain in spliceosom	8e-12
COG5182	429	COG5182, CUS1, Splicing factor 3b, subunit 2 [RNA	2e-05
pfam14392	49	pfam14392, zf-CCHC_4, Zinc knuckle	0.002

>gnl|CDD|202864 pfam04046, PSP, PSP

 Score = 67.2 bits (165), Expect = 2e-14
 Identities = 23/36 (63%), Positives = 27/36 (75%)

Query: 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 416
           +PG L  E R+ LG+ E DPPPWL+RMR LGYPP Y
Sbjct: 1   KPGVLSDELREALGMPEGDPPPWLYRMRRLGYPPSY 36

Proline rich domain found in numerous spliceosome associated proteins. Length = 48

>gnl|CDD|128850 smart00581, PSP, proline-rich domain in spliceosome associated proteins

 Score = 60.1 bits (146), Expect = 8e-12
 Identities = 23/50 (46%), Positives = 30/50 (60%)

Query: 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITI 430
           +PG +  E R+ LGL    PPPWL+RMR LGYPPGY   +     + I +
Sbjct: 5   KPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPRLKIPGLNAPIPL 54

Length = 54

>gnl|CDD|227509 COG5182, CUS1, Splicing factor 3b, subunit 2 [RNA processing and modification]

 Score = 47.3 bits (112), Expect = 2e-05
 Identities = 20/38 (52%), Positives = 25/38 (65%)

Query: 381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 418
           RPGA+ AE R+ LG+    PPPWL  M++ G PP Y D
Sbjct: 279 RPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSYPD 316

Length = 429

>gnl|CDD|222730 pfam14392, zf-CCHC_4, Zinc knuckle

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 11/17 (64%), Positives = 12/17 (70%)

Query: 322 RCFNCGSYSHSLKECPK 338
            CF+CG   HS KECPK
Sbjct: 33  FCFHCGRLGHSDKECPK 49

The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. This particular family is found in plant proteins. Length = 49

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	612
KOG2673	485	consensus Uncharacterized conserved protein, conta	100.0
KOG2330	500	consensus Splicing factor 3b, subunit 2 [RNA proce	99.88
smart00581	54	PSP proline-rich domain in spliceosome associated	99.86
PF04046	48	PSP: PSP; InterPro: IPR006568 PSP is a proline-ric	99.8
COG5182	429	CUS1 Splicing factor 3b, subunit 2 [RNA processing	99.72
KOG2673	485	consensus Uncharacterized conserved protein, conta	98.62
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	97.03
PF14392	49	zf-CCHC_4: Zinc knuckle	89.61
smart00343	26	ZnF_C2HC zinc finger.	87.54
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	87.27
PF13696	32	zf-CCHC_2: Zinc knuckle	85.45
PTZ00368	148	universal minicircle sequence binding protein (UMS	82.51
PTZ00368	148	universal minicircle sequence binding protein (UMS	80.53

>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]

Probab=100.00  E-value=1.9e-45  Score=385.24  Aligned_cols=262  Identities=34%  Similarity=0.583  Sum_probs=213.4

Q ss_pred             CCccccccceeeeceeeccCCCCCceeeEEecccccccCCCCCCCCCCCCCcccccccccccCCCCCCCcCCCcccccCC
Q 007230          241 PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDA  320 (612)
Q Consensus       241 ~~e~~esG~etyfPal~vg~~~ssavsFwvDkq~~~~~n~~~~~~d~~eVPlYdr~~~~~L~s~Dg~sn~E~~lEi~~~~  320 (612)
                      ..+++++++.+|+| +++.......++||++++....--+++.+.+...    ||.++.+|.+.+++-+++++..|.+..
T Consensus        55 qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~t----dr~~a~~l~sq~~s~tvek~~~v~~~~  129 (485)
T KOG2673|consen   55 QQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDST----DRETAVGLISQNKSVTVEKSKLVNKCD  129 (485)
T ss_pred             HHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhccccccc----cccceecccccccchhhhhhhhhccCc
Confidence            34567778888888 8898888888999999997776666666666553    999999999999999889887766544


Q ss_pred             CceecCCCCCCCCCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeeccccccccCCCCCCCCHHHHHHhCCCCCCC
Q 007230          321 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDP  400 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~PRD~a~In~aRKeF~~krnq~~~sr~GdrYYEgk~e~k~~~fkPGkLS~ELReALGm~~ndp  400 (612)
                      + |||||++.|+|+|||+|+|+++|+++||+++..++|        |||....-++++|||||+||.+||.|||+.+++|
T Consensus       130 ~-CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rnq--------ry~~~teq~re~h~KPG~lS~~~R~al~l~~~d~  200 (485)
T KOG2673|consen  130 P-CFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRNQ--------RYYQDTEQGREDHFKPGVLSGNTRSALGLSPGDP  200 (485)
T ss_pred             c-ccccCCCCCccccCCCccccHHHHHHHHhhccccce--------eeeeecchhhhcccCCcccchhHHHhhcCCCCCc
Confidence            4 999999999999999999999999999999877765        8998776669999999999999999999999999


Q ss_pred             hHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCCCCCccccccCCCCCCCeeeeecCCCCCC-CCCCcchhcccc
Q 007230          401 PPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAP-IPENADERLWAA  479 (612)
Q Consensus       401 PPWLyrMrrlGyPPgYp~~a~~~q~SGLtIF~Dg~~k~d~EDGEi~e~~~pe~~rkKiV~fPGFNaP-iPeGad~~~Wg~  479 (612)
                      |+|+||||++||||||+.++ ..+.+||+||+... ..++|+.|  ...+|+++.+|++.|||||.+ .|+...++.|..
T Consensus       201 P~~~yRMR~lGYPPg~L~~s-~~e~s~i~if~eet-~~~dee~e--se~PP~~~~~K~~~f~gfn~~~~p~~~~e~~ke~  276 (485)
T KOG2673|consen  201 PEWKYRMRRLGYPPGYLRKS-DMEVSGIKIFSEET-FQFDEELE--SETPPEPQGTKPVVFPGFNPKGTPPNDREDSKEA  276 (485)
T ss_pred             hHHHHHHhhccCCchhhhhh-hcccccceeecccc-cccCcccC--CCCCCCCCCCCCcccCCCCCCCCCCCChhhcccc
Confidence            99999999999999999987 56899999997222 12223332  334678899999999999999 999999888876


Q ss_pred             CCCCCCcccccccccccCCCCCccccccccccccc--cccCCCCCCCCCCCCCCCCCCC-CC
Q 007230          480 RPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSR--DYRDDGPPGVDPVSSYPPRYGG-YD  538 (612)
Q Consensus       480 ~P~~~d~~r~~~~~~~~~~~e~~~R~~~~~qr~~~--d~rd~gppg~~~~~s~~pr~g~-~~  538 (612)
                         ..|+|+.--+.               .+-.++  ++++|+|.|.++..+++++||. +|
T Consensus       277 ---~r~~s~s~~q~---------------~l~~~~l~~k~~dl~~~~e~s~~~~~~~~t~~D  320 (485)
T KOG2673|consen  277 ---PRDASCSVDQD---------------ALTLSRLEKKQRDLPAGLEQSESAPSDSGTEVD  320 (485)
T ss_pred             ---cchhhhhhhHH---------------HhhhhHHHHHhhhcccccccccCCCcccCCccc
Confidence               23444321111               111223  7889999999999999999998 55

>KOG2330 consensus Splicing factor 3b, subunit 2 [RNA processing and modification]

Probab=99.88  E-value=2.3e-23  Score=218.49  Aligned_cols=83  Identities=33%  Similarity=0.619  Sum_probs=77.6

Q ss_pred             CCCCCCCceEeecc-ccccccCCCCCCCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCcc
Q 007230          359 NSASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIK  437 (612)
Q Consensus       359 ~~~sr~GdrYYEgk-~e~k~~~fkPGkLS~ELReALGm~~ndpPPWLyrMrrlGyPPgYp~~a~~~q~SGLtIF~Dg~~k  437 (612)
                      -.++.+|+.||+++ .+..+++.+||.||+|||.||||+.+.|||||++||++|+|||||+                   
T Consensus       249 p~lt~~Ge~yyegke~e~~~k~k~PG~iS~eLr~aLgmp~g~pPPWl~aMqryGpPpsYPd-------------------  309 (500)
T KOG2330|consen  249 PYLTKFGELYYEGKELEAMVKEKKPGDISDELRIALGMPVGTPPPWLIAMQRYGPPPSYPD-------------------  309 (500)
T ss_pred             cceeecceeeecchhHHHHHhhcCccchhHHHHHHhCCCCCCCChHHHHhhhcCCCCCCCc-------------------
Confidence            34789999999998 5677899999999999999999999999999999999999999996                   


Q ss_pred             CCCCCccccccCCCCCCCeeeeecCCCCCCCCCCcchhccccCCCCC
Q 007230          438 EGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSS  484 (612)
Q Consensus       438 ~d~EDGEi~e~~~pe~~rkKiV~fPGFNaPiPeGad~~~Wg~~P~~~  484 (612)
                                           +++||+|+|||+|+.   ||+||++|
T Consensus       310 ---------------------lkIpGLNapIPeg~s---~Gyh~gGW  332 (500)
T KOG2330|consen  310 ---------------------LKIPGLNAPIPEGCS---FGYHAGGW  332 (500)
T ss_pred             ---------------------ccCCCCCCCCCcccc---cccccCCC
Confidence                                 789999999999998   99999988

>smart00581 PSP proline-rich domain in spliceosome associated proteins

Probab=99.86  E-value=2.3e-22  Score=160.65  Aligned_cols=42  Identities=52%  Similarity=1.112  Sum_probs=40.7

Q ss_pred             ccCCCCCCCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 007230          377 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  418 (612)
Q Consensus       377 ~~~fkPGkLS~ELReALGm~~ndpPPWLyrMrrlGyPPgYp~  418 (612)
                      |++||||+||++||+||||.++++||||++||++|||||||+
T Consensus         1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~   42 (54)
T smart00581        1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR   42 (54)
T ss_pred             CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence            578999999999999999999999999999999999999996

>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins

Probab=99.80  E-value=3.6e-20  Score=145.07  Aligned_cols=38  Identities=66%  Similarity=1.307  Sum_probs=37.0

Q ss_pred             CCCCCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 007230          381 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  418 (612)
Q Consensus       381 kPGkLS~ELReALGm~~ndpPPWLyrMrrlGyPPgYp~  418 (612)
                      |||+||++||+||||.++++||||++||++||||||++
T Consensus         1 kPG~lS~~LR~ALg~~~~~~PPwl~~M~~~G~PP~y~~   38 (48)
T PF04046_consen    1 KPGKLSDELREALGMQENDPPPWLYRMRRLGYPPGYPD   38 (48)
T ss_pred             CCcccCHHHHHHcCCCCCCCChHHHHHHhcCCCCCCcc
Confidence            79999999999999999999999999999999999975

>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]

Probab=99.72  E-value=5.1e-18  Score=174.94  Aligned_cols=82  Identities=38%  Similarity=0.651  Sum_probs=71.6

Q ss_pred             CCCCCCceEeecc-ccccccCCCCCCCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccC
Q 007230          360 SASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKE  438 (612)
Q Consensus       360 ~~sr~GdrYYEgk-~e~k~~~fkPGkLS~ELReALGm~~ndpPPWLyrMrrlGyPPgYp~~a~~~q~SGLtIF~Dg~~k~  438 (612)
                      -.+.||+.||+++ ...-.++.+||.||+|||+||||.+++|||||.+||++|+|||||+                    
T Consensus       257 ~L~~fGe~y~e~~n~~~~vk~krPG~IS~eLrealgi~~g~pPPWlf~Mq~~G~PpsYPD--------------------  316 (429)
T COG5182         257 YLSKFGEFYEEVDNDYRFVKKKRPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSYPD--------------------  316 (429)
T ss_pred             ccccccceeeccchHHHHHhccCCcchHHHHHHHhCCCCCCCChHHHhhhhcCCCCCCcc--------------------
Confidence            3688999999998 4445689999999999999999999999999999999999999996                    


Q ss_pred             CCCCccccccCCCCCCCeeeeecCCCC-CCCC-CCcchhccccCCCCC
Q 007230          439 GQEDGEIIETGRPASKRKMTTEFPGIN-APIP-ENADERLWAARPSSS  484 (612)
Q Consensus       439 d~EDGEi~e~~~pe~~rkKiV~fPGFN-aPiP-eGad~~~Wg~~P~~~  484 (612)
                                          +++||+| +|+| +|.-   ||+.|+.|
T Consensus       317 --------------------lkIpGlNW~~~pL~Gdv---yG~~~p~~  341 (429)
T COG5182         317 --------------------LKIPGLNWAPIPLEGDV---YGYQPPGW  341 (429)
T ss_pred             --------------------ccCCCCCCCCccccccc---ccccCCCc
Confidence                                6799999 8888 5544   77777766

>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]

Probab=98.62  E-value=2.1e-08  Score=107.73  Aligned_cols=137  Identities=22%  Similarity=0.363  Sum_probs=102.4

Q ss_pred             CCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeeccccccccCCCCCCCCHHHHHHhCCCCCCChHHHHHHHhcCC
Q 007230          333 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY  412 (612)
Q Consensus       333 LrDCP~PRD~a~In~aRKeF~~krnq~~~sr~GdrYYEgk~e~k~~~fkPGkLS~ELReALGm~~ndpPPWLyrMrrlGy  412 (612)
                      +++||.|+| ++|+..|++++.+-...+..-++.+|+......+...+.+|.|| ++.++|+-.+.+.+|++++||++|+
T Consensus         1 ~~~cp~~~n-~~i~~~~d~~~e~~~eis~q~~~e~~~d~~~d~~~~r~esg~i~-~qqd~l~~te~a~~~fr~~~qe~~t   78 (485)
T KOG2673|consen    1 MKDCPMPRN-ARISEKRDEYMEACGEISNQNFQERLHDELVDERRGRFESGVIS-EQQDLLGVTEKAFPPFRYRMQELGT   78 (485)
T ss_pred             CCcCCCccc-cccCcchhHHHHHhhhcCCcchhhhccchhhhhhhccccccccc-hHHHHhhcccccccchhhhHHhhcC
Confidence            478999999 99999999999864433344466888877777788999999999 8899999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCeeeec-CCCccCCCCCccccccCCCCCCCeeeeecC--CCC-CCCCCCc
Q 007230          413 PPGYLDSEDDDQPSGITIYA-DGEIKEGQEDGEIIETGRPASKRKMTTEFP--GIN-APIPENA  472 (612)
Q Consensus       413 PPgYp~~a~~~q~SGLtIF~-Dg~~k~d~EDGEi~e~~~pe~~rkKiV~fP--GFN-aPiPeGa  472 (612)
                      |+.|++.+. .+.+|..+|. +...+-..++|.+-.......+.++.|.++  =|| .-.|.++
T Consensus        79 ~s~wl~~~~-~ek~gedl~~~e~~tdr~~a~~l~sq~~s~tvek~~~v~~~~~CFNC~g~~hsL  141 (485)
T KOG2673|consen   79 PSFWLKNAE-LEKSGEDLYLGEDSTDRETAVGLISQNKSVTVEKSKLVNKCDPCFNCGGTPHSL  141 (485)
T ss_pred             chhhhhhcc-cccChhhhccccccccccceecccccccchhhhhhhhhccCccccccCCCCCcc
Confidence            999999654 4578998884 211122345565544444455566666666  444 4456655

>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.03  E-value=0.00032  Score=45.54  Aligned_cols=18  Identities=50%  Similarity=1.315  Sum_probs=16.6

Q ss_pred             CceecCCCCCCCCCCCCC
Q 007230          321 SRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~  338 (612)
                      ..|||||..+|..++||+
T Consensus         1 ~~C~~C~~~GH~~~~Cp~   18 (18)
T PF00098_consen    1 RKCFNCGEPGHIARDCPK   18 (18)
T ss_dssp             SBCTTTSCSSSCGCTSSS
T ss_pred             CcCcCCCCcCcccccCcc
Confidence            479999999999999995

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....

>PF14392 zf-CCHC_4: Zinc knuckle

Probab=89.61  E-value=0.12  Score=40.34  Aligned_cols=19  Identities=58%  Similarity=1.183  Sum_probs=17.5

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 007230          320 ASRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~  338 (612)
                      ...||+||..+|..++||+
T Consensus        31 p~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   31 PRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             ChhhcCCCCcCcCHhHcCC
Confidence            5789999999999999995

>smart00343 ZnF_C2HC zinc finger

Probab=87.54  E-value=0.27  Score=33.64  Aligned_cols=17  Identities=47%  Similarity=1.365  Sum_probs=15.8

Q ss_pred             ceecCCCCCCCCCCCCC
Q 007230          322 RCFNCGSYSHSLKECPK  338 (612)
Q Consensus       322 rCFNCGs~eHsLrDCP~  338 (612)
                      .||+||..+|..++||.
T Consensus         1 ~C~~CG~~GH~~~~C~~   17 (26)
T smart00343        1 KCYNCGKEGHIARDCPK   17 (26)
T ss_pred             CCccCCCCCcchhhCCc
Confidence            49999999999999995

>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=87.27  E-value=0.29  Score=48.84  Aligned_cols=20  Identities=40%  Similarity=1.154  Sum_probs=18.2

Q ss_pred             cCCCceecCCCCCCCCCCCC
Q 007230          318 DDASRCFNCGSYSHSLKECP  337 (612)
Q Consensus       318 ~~~~rCFNCGs~eHsLrDCP  337 (612)
                      .....|||||+.+|..+|||
T Consensus        58 ~~~~~C~nCg~~GH~~~DCP   77 (190)
T COG5082          58 EENPVCFNCGQNGHLRRDCP   77 (190)
T ss_pred             ccccccchhcccCcccccCC
Confidence            34689999999999999999

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=85.45  E-value=0.38  Score=35.95  Aligned_cols=20  Identities=30%  Similarity=0.881  Sum_probs=18.1

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 007230          320 ASRCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~P  339 (612)
                      .-.|+-|+..+|-++|||..
T Consensus         8 ~Y~C~~C~~~GH~i~dCP~~   27 (32)
T PF13696_consen    8 GYVCHRCGQKGHWIQDCPTN   27 (32)
T ss_pred             CCEeecCCCCCccHhHCCCC
Confidence            46799999999999999983

>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional

Probab=82.51  E-value=1  Score=41.54  Aligned_cols=22  Identities=36%  Similarity=0.925  Sum_probs=17.3

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 007230          320 ASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      ...||||+..+|..++||.+++
T Consensus        27 ~~~C~~Cg~~GH~~~~Cp~~~~   48 (148)
T PTZ00368         27 ARPCYKCGEPGHLSRECPSAPG   48 (148)
T ss_pred             CccCccCCCCCcCcccCcCCCC
Confidence            5678888888888888888663

>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional

Probab=80.53  E-value=0.89  Score=41.95  Aligned_cols=20  Identities=35%  Similarity=1.022  Sum_probs=18.1

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 007230          321 SRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~PR  340 (612)
                      +.||||+..+|..++||.+.
T Consensus         1 ~~C~~C~~~GH~~~~c~~~~   20 (148)
T PTZ00368          1 MVCYRCGGVGHQSRECPNSA   20 (148)
T ss_pred             CcCCCCCCCCcCcccCcCCC
Confidence            47999999999999999964

---

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	612
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-11
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	4e-04
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	5e-04
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	8e-04

>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 = 67.2 bits (163), Expect = 1e-11
 Identities = 90/601 (14%), Positives = 160/601 (26%), Gaps = 207/601 (34%)

Query: 99  DSEKKEDD-SNGESMELNE------LNV-EIED--GQLIEEGEVGKDVVDDSNVNV---- 144
           D E  E      + + + E       +  +++D    ++ + E+   ++   +       
Sbjct: 8   DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEI-DHIIMSKDAVSGTLR 66

Query: 145 -------EGTTTVE-LAETIVESD-----SRIHVQNGCLEVGNRSPNHNRMKDVSSTSGV 191
                  +    V+   E ++  +     S I  +        R P+      +      
Sbjct: 67  LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ-------RQPSMMTRMYIE----- 114

Query: 192 KRARMTLDEEQPSVHVIYNSLTRASK-QKLEELLQQWSEWQAQFGSSSNDPNEGIE---- 246
           +R R+  D     V   YN ++R     KL + L +              P + +     
Sbjct: 115 QRDRLYND---NQVFAKYN-VSRLQPYLKLRQALLEL------------RPAKNVLIDGV 158

Query: 247 --FGEQTFFPAIRVGKAKGPAVS-----FWI-------DNQTRNQQNKNFIPSDSHGTPL 292
              G+     A+ V  +           FW+                K     D + T  
Sbjct: 159 LGSGKTWV--ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSR 216

Query: 293 YDRGYALGLTSGDGSSNL---------EGGLEIIDDAS-----RCFNCGSYSHSLKECP- 337
            D    + L      + L         E  L ++ +         FN          C  
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS--------CKI 268

Query: 338 --KPRDK---DAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQL 392
               R K   D ++ A   H S                       D         E + L
Sbjct: 269 LLTTRFKQVTDFLSAATTTHIS----------------------LDHHSMTLTPDEVKSL 306

Query: 393 LGLGELDPPPWLH-RMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG----------QE 441
           L         +L  R ++L  P           P  ++I A+  I++G            
Sbjct: 307 LLK-------YLDCRPQDL--PR----EVLTTNPRRLSIIAE-SIRDGLATWDNWKHVNC 352

Query: 442 D--GEIIETG----RPASKRKMTTE---FPGINAPIPENADERLWAARPSSSDSSRDRSH 492
           D    IIE+      PA  RKM      FP  +A IP      +W       D  +    
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFPP-SAHIPTILLSLIW------FDVIKSDVM 405

Query: 493 HRLNH-HSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGR 551
             +N  H  S+       ++  ++                        Y           
Sbjct: 406 VVVNKLHKYSLV------EKQPKEST----------------ISIPSIY----------L 433

Query: 552 SYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSM------DEYDRF 605
               +  ++YA H S    Y+   T   D  +  Y D Y   ++   +      +    F
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493

Query: 606 R 606
           R
Sbjct: 494 R 494

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63

 Score = 38.0 bits (88), Expect = 4e-04
 Identities = 10/25 (40%), Positives = 11/25 (44%)

Query: 318 DDASRCFNCGSYSHSLKECPKPRDK 342
               RC+NCG   H  KEC  P   
Sbjct: 5   SSGDRCYNCGGLDHHAKECKLPPQP 29

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Length = 437

 Score = 41.8 bits (97), Expect = 5e-04
 Identities = 23/132 (17%), Positives = 32/132 (24%), Gaps = 1/132 (0%)

Query: 480 RPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDY 539
                  SR+RS  +        SR R   +R      +    G D            D 
Sbjct: 270 DKEERRRSRERSKDKDRDRKRRSSRSRERARRERERKEELRGGGGDMAEPSEAGDAPPDD 329

Query: 540 YSSHSRSPTRGRSYSDRDRD-DYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRS 598
                  P       ++ RD D     S+ S    R     D D DR      R      
Sbjct: 330 GPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRDRDREHKRGERGSERGR 389

Query: 599 MDEYDRFRPRGR 610
            +       +  
Sbjct: 390 DEARGGGGGQDN 401

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Length = 74

 Score = 37.3 bits (86), Expect = 8e-04
 Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 1/45 (2%)

Query: 322 RCFNCGSYSHSLKECPKPRDKDAVNNARKQ-HKSKRNQNSASRNP 365
           RC+NCG   H  KEC  P      +  +   H        A + P
Sbjct: 26  RCYNCGGLDHHAKECKLPPQPKKCHFCQSISHMVASCPLKAQQGP 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	612
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	97.08
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	96.94
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	96.32
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	95.62
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	95.48
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	95.31
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	95.0
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	94.77
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	94.59
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	94.14
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	93.77
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	93.72
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	93.59
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	93.28
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	93.09
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	93.02
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	93.01
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	92.49
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	91.96
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	91.78
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	91.48
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	90.18
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	88.74
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	88.44
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	86.32
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	83.86
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	82.29

>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A

Probab=97.08  E-value=0.00016  Score=50.06  Aligned_cols=22  Identities=45%  Similarity=1.081  Sum_probs=19.7

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 007230          320 ASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      ...|||||.++|..++||.|+-
T Consensus         6 ~~~C~nCgk~GH~ar~C~~prk   27 (29)
T 1nc8_A            6 VIRCWNCGKEGHSARQCRAPRR   27 (29)
T ss_dssp             CCBCTTTSCBSSCGGGCCSSSS
T ss_pred             CCEEEECCccccCHhHCccccc
Confidence            4679999999999999999973

>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1

Probab=96.32  E-value=0.0017  Score=48.68  Aligned_cols=23  Identities=35%  Similarity=0.735  Sum_probs=20.7

Q ss_pred             CCCceecCCCCCCCCCCCCCccC
Q 007230          319 DASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       319 ~~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      ....|||||..+|-.++||.++.
T Consensus         9 ~~~~C~~Cgk~GH~ardCP~~~~   31 (40)
T 1a6b_B            9 DRDQCAYCKEKGHWAKDCPKKPR   31 (40)
T ss_dssp             CSSSCSSSCCTTCCTTSCSSSCC
T ss_pred             CCCeeeECCCCCcchhhCcCCcc
Confidence            46899999999999999999764

>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}

Probab=95.62  E-value=0.0045  Score=44.95  Aligned_cols=19  Identities=47%  Similarity=1.209  Sum_probs=16.4

Q ss_pred             ceecCCCCCCCCCCCCCcc
Q 007230          322 RCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       322 rCFNCGs~eHsLrDCP~PR  340 (612)
                      .|||||..+|..++||.|+
T Consensus         2 ~C~~Cg~~GH~a~~C~~~~   20 (39)
T 2a51_A            2 TCFNCGKPGHTARMCRQPR   20 (39)
T ss_dssp             BCTTTCCBSSCTTTCCSCC
T ss_pred             eeeccCCCCcccccCCCCC
Confidence            6999999999999999874

>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1

Probab=95.48  E-value=0.0059  Score=46.40  Aligned_cols=21  Identities=48%  Similarity=1.137  Sum_probs=15.9

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 007230          320 ASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ...|||||..+|..++||.|+
T Consensus         6 ~~~C~~Cg~~GH~a~~C~~~~   26 (49)
T 2ec7_A            6 VIRCWNCGKEGHSARQCRAPR   26 (49)
T ss_dssp             CCBCTTTCCBTCCTTTCCCSS
T ss_pred             cCeeeecCCCCcChhhCcCCC
Confidence            456888888888888888764

>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A

Probab=95.31  E-value=0.0059  Score=48.70  Aligned_cols=24  Identities=33%  Similarity=0.649  Sum_probs=21.0

Q ss_pred             cCCCceecCCCCCCCCCCCCCccC
Q 007230          318 DDASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       318 ~~~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      .....|||||..+|-.+|||.+..
T Consensus        21 ~~~~~C~~Cge~GH~ardCp~~~~   44 (56)
T 1u6p_A           21 LDRDQCAYCKEKGHWAKDCPKKPR   44 (56)
T ss_dssp             CCTTBCSSSCCBSSCGGGCTTCCC
T ss_pred             CCCCcceeCCCCCcccccCcCCcc
Confidence            346889999999999999999764

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=95.00  E-value=0.01  Score=42.62  Aligned_cols=18  Identities=39%  Similarity=1.056  Sum_probs=13.6

Q ss_pred             ceecCCCCCCCCCCCCCc
Q 007230          322 RCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       322 rCFNCGs~eHsLrDCP~P  339 (612)
                      .|||||..+|..++||.|
T Consensus         2 ~C~~Cg~~GH~~~~C~~~   19 (37)
T 2bl6_A            2 TCYNCGKPGHLSSQCRAP   19 (37)
T ss_dssp             CBSSSCCSSCCTTTSSCB
T ss_pred             cccccCCCCcchhhCcCc
Confidence            577777777777777765

>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}

Probab=94.77  E-value=0.01  Score=46.81  Aligned_cols=20  Identities=45%  Similarity=1.050  Sum_probs=10.9

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 007230          321 SRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ..|||||.+.|..++||.++
T Consensus         5 ~~C~~Cg~~GH~a~~C~~~~   24 (61)
T 2ihx_A            5 GLCYTCGSPGHYQAQCPKKR   24 (61)
T ss_dssp             TBCSSSCCBTCCGGGCTTTT
T ss_pred             CcccccCCCCeehhhCcCCc
Confidence            34555555555555555543

>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A

Probab=94.59  E-value=0.013  Score=45.06  Aligned_cols=20  Identities=45%  Similarity=1.089  Sum_probs=14.2

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 007230          320 ASRCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~P  339 (612)
                      ...|||||..+|..++||.|
T Consensus        12 ~~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           12 TVKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             TCBCTTTCCBSSCGGGCSSC
T ss_pred             CcceeeeCCCCcChhhcCCC
Confidence            35677777777777777776

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=94.14  E-value=0.024  Score=45.16  Aligned_cols=19  Identities=53%  Similarity=1.268  Sum_probs=12.3

Q ss_pred             CceecCCCCCCCCCCCCCc
Q 007230          321 SRCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~P  339 (612)
                      ..|||||..+|..++||.|
T Consensus         8 ~~C~~Cg~~GH~a~~C~~~   26 (63)
T 2cqf_A            8 DRCYNCGGLDHHAKECKLP   26 (63)
T ss_dssp             CCCSSSCCSSSCTTTCCSC
T ss_pred             CcccccCCCCcChhhCCCC
Confidence            4566666666666666654

>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=93.77  E-value=0.017  Score=45.95  Aligned_cols=19  Identities=42%  Similarity=1.102  Sum_probs=17.4

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 007230          320 ASRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~  338 (612)
                      ...||.||.++|.+++||.
T Consensus         7 ~~~C~kCGk~GH~~k~Cp~   25 (55)
T 2ysa_A            7 GYTCFRCGKPGHYIKNCPT   25 (55)
T ss_dssp             SCCCTTTCCTTSCGGGCSG
T ss_pred             CCccccCCCcCcccccCCC
Confidence            4679999999999999996

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=93.72  E-value=0.033  Score=43.47  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 007230          320 ASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      ...||+||..+|..++||.+++
T Consensus        30 ~~~C~~Cg~~GH~ar~C~~~~~   51 (60)
T 1cl4_A           30 PGLCPRCKRGKHWANECKSKTD   51 (60)
T ss_dssp             CCSCSSCSSCSSCSTTCCCTTS
T ss_pred             CcceeECCCCCCccCcCCCccc
Confidence            5789999999999999999754

>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}

Probab=93.59  E-value=0.031  Score=40.48  Aligned_cols=19  Identities=47%  Similarity=1.186  Sum_probs=17.4

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 007230          320 ASRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~  338 (612)
                      ...|||||..+|..++||+
T Consensus        21 ~~~C~~Cg~~GH~~~~C~~   39 (39)
T 2a51_A           21 QEGCWNCGSKEHRFAQCPK   39 (39)
T ss_dssp             CSSCTTTCCSSSCTTTSCC
T ss_pred             CCccccCCCCCCccCcCcC
Confidence            4689999999999999995

>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A

Probab=93.28  E-value=0.015  Score=45.38  Aligned_cols=22  Identities=32%  Similarity=0.806  Sum_probs=0.0

Q ss_pred             CceecCCCCCCCCCCCCCccCH
Q 007230          321 SRCFNCGSYSHSLKECPKPRDK  342 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~PRD~  342 (612)
                      ..|||||.++|..++||.+++.
T Consensus         2 ~~Cf~Cg~~GH~a~~C~~~~~~   23 (60)
T 1cl4_A            2 GSCFKCGKKGHFAKNCHEHAHN   23 (60)
T ss_dssp             ----------------------
T ss_pred             CccccCCCCCcCHhhCcCCCCC
Confidence            3699999999999999997653

>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}

Probab=93.09  E-value=0.029  Score=44.30  Aligned_cols=23  Identities=30%  Similarity=0.679  Sum_probs=19.2

Q ss_pred             CCceecCCCCCCCCCCCCCccCH
Q 007230          320 ASRCFNCGSYSHSLKECPKPRDK  342 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD~  342 (612)
                      ...|||||...|..++||.++..
T Consensus        30 ~~~C~~Cg~~GH~ar~C~~~~~~   52 (61)
T 2ihx_A           30 RERCQLCNGMGHNAKQCRKRDGN   52 (61)
T ss_dssp             CSBCTTTCCBSSCGGGCCCCC--
T ss_pred             CCeeCCCCCCCCCcCCCcCCCcC
Confidence            46799999999999999997653

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=93.02  E-value=0.042  Score=45.45  Aligned_cols=21  Identities=48%  Similarity=1.141  Sum_probs=15.0

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 007230          320 ASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ...|||||..+|..++||.+.
T Consensus        24 ~~~C~~Cg~~GH~a~~C~~~~   44 (74)
T 2li8_A           24 GDRCYNCGGLDHHAKECKLPP   44 (74)
T ss_dssp             TSCCTTTCCSSSCTTTCSSCC
T ss_pred             CCcccccCCcCcCcccCCCCC
Confidence            356777777777777777653

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=93.01  E-value=0.032  Score=47.20  Aligned_cols=22  Identities=32%  Similarity=0.800  Sum_probs=20.1

Q ss_pred             CCCceecCCCCCCCCCCCCCcc
Q 007230          319 DASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       319 ~~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ....|+|||..+|.-+|||++|
T Consensus        45 ~~~~CYnCG~~GH~~rdC~~~r   66 (83)
T 3nyb_B           45 HTIYCYNCGGKGHFGDDCKEKR   66 (83)
T ss_dssp             CCCBCSSSSCBSSCGGGCSSCC
T ss_pred             CCCeecccCCCCcCcccCCccc
Confidence            3578999999999999999977

>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A

Probab=92.49  E-value=0.043  Score=42.11  Aligned_cols=21  Identities=29%  Similarity=0.933  Sum_probs=18.9

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 007230          320 ASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ...||+||..+|..++||.++
T Consensus        33 ~~~C~~Cg~~GH~~~~C~~~~   53 (55)
T 1a1t_A           33 KKGCWKCGKEGHQMKDCTERQ   53 (55)
T ss_dssp             CCBCTTTCCBSSCGGGCSSSC
T ss_pred             CCEeCCCCCcCCccCCCcCcC
Confidence            468999999999999999865

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=91.96  E-value=0.05  Score=49.82  Aligned_cols=22  Identities=45%  Similarity=1.103  Sum_probs=17.0

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 007230          320 ASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      ..+|||||..+|..++||.|..
T Consensus        97 ~~~C~~Cg~~GH~a~~C~~~~~  118 (148)
T 3ts2_A           97 GDRCYNCGGLDHHAKECKLPPQ  118 (148)
T ss_dssp             SCCCTTTCCSSCCGGGCCSCCC
T ss_pred             CCcccEeCCccchhhhCCCCCC
Confidence            3568888888888888887543

>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1

Probab=91.78  E-value=0.061  Score=40.79  Aligned_cols=21  Identities=29%  Similarity=0.963  Sum_probs=18.5

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 007230          320 ASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ...||+||..+|..++||...
T Consensus        27 ~~~C~~Cg~~GH~~~~C~~~~   47 (49)
T 2ec7_A           27 RQGCWKCGKTGHVMAKCPERQ   47 (49)
T ss_dssp             CCSCSSSCCSSCCGGGCCSSC
T ss_pred             CCeeCcCCCcCCccCCCcCCC
Confidence            467999999999999999854

>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.48  E-value=0.072  Score=42.41  Aligned_cols=21  Identities=33%  Similarity=0.755  Sum_probs=18.8

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 007230          320 ASRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PR  340 (612)
                      ...|||||..+|..++||..+
T Consensus        29 ~~~C~~Cg~~GH~ar~Cp~~~   49 (63)
T 2cqf_A           29 PKKCHFCQSISHMVASCPLKA   49 (63)
T ss_dssp             SSCCTTTCCSSSCTTTCTGGG
T ss_pred             CCccCCcCCcCCccCcCCCcc
Confidence            578999999999999999853

>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}

Probab=90.18  E-value=0.089  Score=37.67  Aligned_cols=18  Identities=33%  Similarity=0.778  Sum_probs=16.7

Q ss_pred             CceecCCCCCCCCCCCCC
Q 007230          321 SRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~  338 (612)
                      ..||+||..+|..++||.
T Consensus        20 ~~C~~Cg~~GH~a~~C~~   37 (37)
T 2bl6_A           20 KVCFKCKQPGHFSKQCRS   37 (37)
T ss_dssp             TTCSSCCCTTGGGGTTCC
T ss_pred             CeEccCCCcCCccCcCcC
Confidence            689999999999999984

>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*

Probab=88.74  E-value=0.15  Score=46.73  Aligned_cols=23  Identities=26%  Similarity=0.706  Sum_probs=19.2

Q ss_pred             CCceecCCCCCCCCCCCCCccCH
Q 007230          320 ASRCFNCGSYSHSLKECPKPRDK  342 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~PRD~  342 (612)
                      ...||+||..+|..++||...-.
T Consensus       119 ~~~C~~Cg~~GH~~r~Cp~~~~~  141 (148)
T 3ts2_A          119 PKKCHFCQSINHMVASCPLKAQQ  141 (148)
T ss_dssp             CCCCTTTCCSSCCGGGCTTTTC-
T ss_pred             CCcccccCCcCCEeccCcCCCCC
Confidence            46899999999999999985443

>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}

Probab=88.44  E-value=0.17  Score=41.84  Aligned_cols=20  Identities=35%  Similarity=0.803  Sum_probs=18.3

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 007230          320 ASRCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~P  339 (612)
                      ...||+||..+|..++||..
T Consensus        46 ~~~C~~Cg~~GH~ar~Cp~~   65 (74)
T 2li8_A           46 PKKCHFCQSISHMVASCPLK   65 (74)
T ss_dssp             CCCCTTTCCTTSCGGGCTTG
T ss_pred             CCccCCcCCcCCccCcCcCC
Confidence            47899999999999999984

>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}

Probab=86.32  E-value=0.18  Score=42.65  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=17.1

Q ss_pred             CCCceecCCCCCCCCCCCCCc
Q 007230          319 DASRCFNCGSYSHSLKECPKP  339 (612)
Q Consensus       319 ~~~rCFNCGs~eHsLrDCP~P  339 (612)
                      +...||||++.+|..++||..
T Consensus         4 k~~~C~~Cg~~GH~~~~Cp~~   24 (83)
T 3nyb_B            4 KKVQCTLCKSKKHSKERCPSI   24 (83)
T ss_dssp             ---CCSSSCCSSSCGGGCGGG
T ss_pred             ccCCCCCCCCCCCccccCCCc
Confidence            467899999999999999985

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=83.86  E-value=0.45  Score=41.52  Aligned_cols=20  Identities=30%  Similarity=0.811  Sum_probs=18.3

Q ss_pred             CCCceecCCCCCCCCCCCCC
Q 007230          319 DASRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       319 ~~~rCFNCGs~eHsLrDCP~  338 (612)
                      ....|||||+.+|..+|||+
T Consensus       104 ~~~~Cy~Cg~~GH~a~dCp~  123 (124)
T 2lli_A          104 HTIYCYNCGGKGHFGDDCKE  123 (124)
T ss_dssp             CCCCTTTTSSSCTTTTTSCC
T ss_pred             CCCCcCCCCCCCcCcccCcC
Confidence            35789999999999999997

>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}

Probab=82.29  E-value=0.55  Score=40.93  Aligned_cols=18  Identities=39%  Similarity=0.988  Sum_probs=13.4

Q ss_pred             CceecCCCCCCCCCCCCC
Q 007230          321 SRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~  338 (612)
                      ..||||+..+|..++||.
T Consensus         5 ~~C~~C~~~GH~~~~Cp~   22 (124)
T 2lli_A            5 PKCNNCSQRGHLKKDCPH   22 (124)
T ss_dssp             SCCSSCSSSSCCTTTTTS
T ss_pred             CcccCCCCCCcCcccCcC
Confidence            457777777777777776

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	612
d2exfa1	42	g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod	6e-05

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Length = 42

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

 Score = 38.3 bits (89), Expect = 6e-05
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 322 RCFNCGSYSHSLKECPKPRDK 342
           +CFNCG   H+ + C  PR K
Sbjct: 3   KCFNCGKEGHTARNCRAPRKK 23

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	612
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	96.91
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	96.6
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	91.63
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	87.66

>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=96.91  E-value=0.00014  Score=49.85  Aligned_cols=23  Identities=43%  Similarity=1.041  Sum_probs=20.4

Q ss_pred             CCCceecCCCCCCCCCCCCCccC
Q 007230          319 DASRCFNCGSYSHSLKECPKPRD  341 (612)
Q Consensus       319 ~~~rCFNCGs~eHsLrDCP~PRD  341 (612)
                      +...|||||-++|..++|--||-
T Consensus         5 ~~ikCfNCGkeGH~ar~CrAPRk   27 (29)
T d1nc8a_           5 KVIRCWNCGKEGHSARQCRAPRR   27 (29)
T ss_dssp             CCCBCTTTSCBSSCGGGCCSSSS
T ss_pred             ceeEeecCCccchhhhhccCccc
Confidence            35789999999999999999974

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=96.60  E-value=0.00038  Score=50.53  Aligned_cols=20  Identities=45%  Similarity=1.203  Sum_probs=15.4

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 007230          321 SRCFNCGSYSHSLKECPKPR  340 (612)
Q Consensus       321 ~rCFNCGs~eHsLrDCP~PR  340 (612)
                      .+|||||..+|..++||.|+
T Consensus         2 i~C~~Cg~~GH~~~~Cp~~~   21 (42)
T d2exfa1           2 VKCFNCGKEGHTARNCRAPR   21 (42)
T ss_dssp             CCCTTTCCSSSCTTTCSSCC
T ss_pred             CccccCCCcCcCcccCcCCC
Confidence            46888888888888888765

>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]}

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 1, different isolates [TaxId: 11676]

Probab=91.63  E-value=0.04  Score=39.55  Aligned_cols=19  Identities=32%  Similarity=1.020  Sum_probs=17.4

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 007230          320 ASRCFNCGSYSHSLKECPK  338 (612)
Q Consensus       320 ~~rCFNCGs~eHsLrDCP~  338 (612)
                      ...||+||..+|..++||+
T Consensus        22 ~~~C~~Cg~~GH~~~~Cp~   40 (42)
T d2exfa1          22 KKGCWKCGKEGHQMKDCTE   40 (42)
T ss_dssp             CSSCSSSCCSSSCTTTCCS
T ss_pred             cCccccCCCCCeecccCCC
Confidence            3579999999999999997