Citrus Sinensis ID: 013677

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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-------44
Protein Sequence
MLLILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Secondary Structure (PSIPRED)
cEEEEEEEcccccccccEEccccccccccEEEEEccHHcHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccEEccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccEEcccccccccccccccccHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccEEEEcccccccccccccccccccccccccEEccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEEEcccccccEcccEEccccccEEEEEEccccHHHHHHHHHHHHHHHHHHHHHcccccccHHHcccccccEccEEEEcccccccEEEEEEcccccccccccEccccccccccccEEEEccccccccccccccEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccEEEccccHHHccccccccccHHHHHHHccccccccHHHHHHHHcccccccccHHHHHccccEEEEccccccccccccccccccccccccHEEEccccccccccccccHHHcccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MLLILFSIIKMAATSGVKrarmtldeeqpsvHVIYNSLTRASKQKLEELLQQWSEWQaqfgsssndpnegiefgeqtffpairvgkakgpavsFWIDnqtrnqqnknfipsdshgtplydrgyalgltsgdgssnleggleiiddasrcfncgsyshslkecpkprdkdavNNARKQHkskrnqnsasrnpmryyqnsaggkydglrpgaldAETRQLlglgeldpppwlhrmrelgyppgyldsedddqpsgitiyadgeikegqedgeiietgrpaskrkmttefpginapipenaderlwaarpsssdssrdrshhrlnhhsesisrgryheqrwsrdyrddgppgvdpvssyppryggydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldryrddYSREYLSRsmdeydrfrprgrww
Flexible Loop (DISEMBL)
MLLILFSIIKMAATSGVKrarmtldeeqpsvhVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQtrnqqnknfipsdshgtpLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSyshslkecpkprdkdavnnarkqhkskrnqnsasrnpmRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADgeikegqedgeiietgrpaskrkmttefpginapipenadeRLWAARPSssdssrdrshhrlnhhsesisrgryhEQRWSrdyrddgppgvDPVSSYPPRYGGydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldrYRDDYSReylsrsmdeydrfrprgrww
Low Complexity Region (SEG)
MLLILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAArpsssdssrdrshhrlnhhsESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTrgrsysdrdrddyASHGSYSSPYSNRHTsppdydldryrddysreylsrsMDEYDRFRPRGRWW
Disordered region (IsUnstruct)
*LLILFSIIKMAATSGVKR***********VHVIYNSLTR*****LEELLQQWSEWQ*************IEFGEQTFFPAIRVGKAKGPAVSFWIDN******************PLYDRGYALGLT*******LEGGLEIIDDASRCFNCGSY*************************************************************QLLGLGELDPPPWLHRMRELGY********************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
***ILFSIIKM*************DEEQPSVHVIYNSLTRASKQKLEELLQ**********************************KAKGPAVSFWIDNQTRNQ*********SHGTPLYDRGY***********************SRCFNCGSYSHSLKECPKPRDKDAVNNARK*************************KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYAD************************TTEFPGINAPIPENADERLWA**************************************************************************************************************************************
Disordered Region (DISEMBL)
MLLILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHS*****************************SRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW********************************QRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYS****************RDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Disordered Region (DISPRO)
MLLILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS****P*EGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG***************RPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHH**********************PPG*D**SSYPPRYGGYDYYSS**********************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLLILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
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	438	2.2.26 [Sep-21-2011]
Q6DD45	743	Zinc finger CCHC domain-c	N/A	no	0.351	0.207	0.349	1e-19
Q9CYA6	709	Zinc finger CCHC domain-c	yes	no	0.394	0.244	0.322	1e-18
Q5F3D1	613	Zinc finger CCHC domain-c	yes	no	0.408	0.292	0.309	2e-18
Q6NZY4	707	Zinc finger CCHC domain-c	yes	no	0.401	0.248	0.304	2e-17
Q5R789	704	Zinc finger CCHC domain-c	yes	no	0.401	0.25	0.304	3e-17
Q2PE14	553	Zinc finger CCHC domain-c	yes	no	0.301	0.238	0.348	5e-14
P34656	453	Uncharacterized protein Z	no	no	0.194	0.187	0.294	0.0007

>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 = 1e-19,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 91/166 (54%), Gaps = 12/166 (7%)

Query: 139 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 194
           G EI   A R    CFNCGS  H +++CPKPRD+  +N  RK+      + + ++N  RY
Sbjct: 201 GQEIQVKAKRPKPCCFNCGSEEHQMRDCPKPRDQAHINMKRKEFLDACGE-AGNQNQQRY 259

Query: 195 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 254
           +      ++   +PG +  E ++ LG+ + + PP+++RMRELGYPPG+L  E + + SG+
Sbjct: 260 HAEEVEERFGKYKPGVISEELQEALGIMDKNLPPFIYRMRELGYPPGWL-KEAELENSGL 318

Query: 255 TIYADGEIKEGQEDGEIIETGRPASKR-----KMTTEFPGINAPIP 295
           ++Y DG+ +    DGEI +    A K           +PG N   P
Sbjct: 319 SLY-DGKERLDASDGEIEDRDTEAKKHVSYDVSKLVNYPGFNISAP 363

Xenopus laevis (taxid: 8355)

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

 Score = 94.7 bits (234), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 60/186 (32%), Positives = 93/186 (50%), Gaps = 13/186 (6%)

Query: 149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 208
           CFNCGS  H +KECP PR+   ++  RK++     + S      RY+      ++   +P
Sbjct: 232 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEASGQSFQQRYHAEEVEERFGRFKP 291

Query: 209 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-----ADGEIK 263
           G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y     ADGE  
Sbjct: 292 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALYDGNDDADGET- 349

Query: 264 EGQEDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL 321
              E GEI          K+   +PG N   P    DE R++ + P  +   +D     L
Sbjct: 350 ---ETGEIQNKNVTYDLSKLVN-YPGFNISTPRGIPDEWRMFGSIPMQACQQKDVFASYL 405

Query: 322 NHHSES 327
           N + +S
Sbjct: 406 NSNIQS 411

May be involved in pre-mRNA splicing.

Mus musculus (taxid: 10090)

>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 = 2e-18,   Method: Compositional matrix adjust.
 Identities = 57/184 (30%), Positives = 90/184 (48%), Gaps = 5/184 (2%)

Query: 147 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 206
           S CFNCGS  H +K+CPKPR+   ++  RK+      + S      RY+      ++   
Sbjct: 126 SHCFNCGSEEHQIKDCPKPRNAARISEKRKEFMEAYGEASNQNFQQRYHAEEVEERFGKF 185

Query: 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ 266
           +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+     
Sbjct: 186 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKDDNET 243

Query: 267 EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL-NH 323
           ED   ++             +PG N   P    DE +++ + P      +D   H L N 
Sbjct: 244 EDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDEWQIFGSIPMQPSQQKDVFAHYLSNF 303

Query: 324 HSES 327
           H+ S
Sbjct: 304 HAPS 307

Gallus gallus (taxid: 9031)

>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 = 2e-17,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 92/184 (50%), Gaps = 8/184 (4%)

Query: 139 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 194
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 215 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 274

Query: 195 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 254
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 275 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 333

Query: 255 TIYADGEIKEGQ-EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSD 311
            +Y   +  +G+ E GEI +             +PG N   P    DE R++ + P  + 
Sbjct: 334 ALYDGKDGTDGETEVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIPMQAC 393

Query: 312 SSRD 315
             +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 = 90.1 bits (222), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 56/184 (30%), Positives = 92/184 (50%), Gaps = 8/184 (4%)

Query: 139 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 194
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 213 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 272

Query: 195 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 254
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 273 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 331

Query: 255 TIYADGEIKEGQ-EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSD 311
            +Y   +  +G+ E GEI +             +PG N   P    DE R++ + P  + 
Sbjct: 332 ALYDGKDGTDGETEVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIPMQAC 391

Query: 312 SSRD 315
             +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 = 79.3 bits (194), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 17/149 (11%)

Query: 147 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 206
           S CFNCG   HSL++C KPR+   +  ARK+  S+           RY+ ++   ++  +
Sbjct: 183 SSCFNCGDTEHSLRDCTKPRNNSRITRARKKMTSRTE---------RYHVDTE-QRFGHI 232

Query: 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-ADGE--IK 263
           RPG +  +TR  +G      P   +RMR LGYPP +L+ E   Q SGI ++ ADG    K
Sbjct: 233 RPGKISTKTRHAMGYSRGQLPFIFYRMRVLGYPPAWLE-EAKVQSSGIALFNADGSEVTK 291

Query: 264 EGQEDGEIIETGRPASKRKMTTEFPGINA 292
             +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 = 45.8 bits (107), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 17/102 (16%)

Query: 149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG---GKYDG 205
           CFNC    H+L++C + +D   ++  +++    R          R + N  G    +   
Sbjct: 111 CFNCDG-EHNLRDCTQRKDFRRISRKKRESGDGRQ---------RVFYNDVGISKQREKH 160

Query: 206 LRPGALDAETRQLLGLGELDPPPWLHRMREL----GYPPGYL 243
            +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	438
255570019	693	nucleic acid binding protein, putative [	0.979	0.619	0.632	1e-151
359488397	575	PREDICTED: uncharacterized protein LOC10	0.835	0.636	0.673	1e-141
224079886	531	predicted protein [Populus trichocarpa]	0.803	0.662	0.687	1e-140
449525630	610	PREDICTED: uncharacterized protein LOC10	0.835	0.6	0.654	1e-134
307136480	610	nucleic acid binding protein [Cucumis me	0.835	0.6	0.654	1e-134
356573637	660	PREDICTED: uncharacterized protein LOC10	0.938	0.622	0.596	1e-134
449447474	610	PREDICTED: uncharacterized protein LOC10	0.835	0.6	0.654	1e-134
298204384	1165	unnamed protein product [Vitis vinifera]	0.785	0.295	0.635	1e-129
224127396	289	predicted protein [Populus trichocarpa]	0.657	0.996	0.730	1e-123
358346605	543	Zinc finger CCHC domain-containing prote	0.776	0.626	0.649	1e-117

>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 =  540 bits (1391), Expect = e-151,   Method: Compositional matrix adjust.
 Identities = 284/449 (63%), Positives = 340/449 (75%), Gaps = 20/449 (4%)

Query: 3   LILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS 62
           LI   ++K    SGVKRAR+  +E+QPSVHV YNSLTRASK+KLEELLQQWSEW  Q GS
Sbjct: 234 LIQNHMMKGGHVSGVKRARIAYNEQQPSVHVTYNSLTRASKRKLEELLQQWSEWHVQRGS 293

Query: 63  SSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRG 122
           SS D NE +E GE+T+FPA+ VG  K  AVSFWI+NQT+ Q N + I SDS   PLYDRG
Sbjct: 294 SSQDLNEVLESGEETYFPALCVGTEKSSAVSFWIENQTKKQLNNDLISSDSDSVPLYDRG 353

Query: 123 YALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKR 182
           +A+GLTS DG SN+EGGLEI+++A+RCFNCGSYSH+LKECPKPR+  AVNNARKQHKSKR
Sbjct: 354 FAIGLTSTDGPSNVEGGLEIVNEAARCFNCGSYSHALKECPKPRNNAAVNNARKQHKSKR 413

Query: 183 NQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 242
           NQN+ SRN  RYYQ+S+GGKY+GL+PG+LDAETR+LLGLGELDPPPWL+RMRELGYPPGY
Sbjct: 414 NQNAGSRNGTRYYQSSSGGKYEGLKPGSLDAETRRLLGLGELDPPPWLNRMRELGYPPGY 473

Query: 243 LDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERL 302
           LD +D+DQPSGI I+ADG+IK+ QEDGEIIET  P   RKM  EFPGINAPIPENADERL
Sbjct: 474 LDPDDEDQPSGIIIFADGDIKDEQEDGEIIETENPDPPRKMAVEFPGINAPIPENADERL 533

Query: 303 WAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPV---SSYPPR 359
           W   PSS +S R+R   + +H SE+ISR  +HEQR SRD  D+GPPGVDPV   SS+PPR
Sbjct: 534 WETGPSSYNSFRNRPFRKSDHSSETISRWHHHEQRGSRDSIDEGPPGVDPVFSPSSFPPR 593

Query: 360 YGGYDYYSSHSR----SPTRGRSYSDRDR------DDYASHGSYSSPYSNRHTSPPDYDL 409
           YG YD   S       + +  RS S++ R      +D+ASH S      N+ +SP D D 
Sbjct: 594 YGNYDSSYSSDSLRGSTASLPRSRSEKGRRSPVVYEDFASHSSSPFSSLNKRSSPKDNDS 653

Query: 410 DRY------RDDYSR-EYLSRSMDEYDRF 431
           DR       R +YSR +Y  RS+DE+DR+
Sbjct: 654 DRLESETDERWNYSRLDYSYRSIDEHDRY 682

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  509 bits (1310), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 262/389 (67%), Positives = 298/389 (76%), Gaps = 23/389 (5%)

Query: 8   IIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP 67
           +I   + SGVKRAR+T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ SSS+DP
Sbjct: 126 MIDGTSISGVKRARLTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVSSSHDP 185

Query: 68  NEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGL 127
              ++ GE+T+FPA+ VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG+ALGL
Sbjct: 186 KGQLDSGEKTYFPALHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRGFALGL 245

Query: 128 TSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSA 187
            S DG S  EG LEIID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+RNQN  
Sbjct: 246 VSEDGQSKPEGALEIID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRRNQNPG 304

Query: 188 SRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSED 247
           SRNP RYYQNS GG+YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGYLD E+
Sbjct: 305 SRNPTRYYQNSPGGRYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGYLDPEE 364

Query: 248 DDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARP 307
           ++QPSGITIYAD E+K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER WAA  
Sbjct: 365 EEQPSGITIYADEEVKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERRWAA-- 422

Query: 308 SSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVD-----PVSSYPPRYGG 362
                   R H RLNH  E  SR   HEQRWSRDYRDDGP   D     P SSYPPR+GG
Sbjct: 423 ------GSRPHRRLNHSYEPSSRRNSHEQRWSRDYRDDGPCDSDMEISPPRSSYPPRHGG 476

Query: 363 YD-YYSSHS--------RSPTRGRSYSDR 382
            D  Y+S+S        RSP  GRS SDR
Sbjct: 477 IDSSYTSYSTRGNIPRPRSPNFGRSLSDR 505

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 =  504 bits (1299), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 249/362 (68%), Positives = 292/362 (80%), Gaps = 10/362 (2%)

Query: 6   FSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSN 65
           +S +K A  SGVKR R+T +EEQPSVHV+YNSLTRASK+KLEELLQQWSEW AQ  SSS+
Sbjct: 112 YSALK-ANVSGVKRKRITYNEEQPSVHVMYNSLTRASKKKLEELLQQWSEWHAQQNSSSH 170

Query: 66  DPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYAL 125
           D +E ++ GE T+FPA+R+G  K  AV+FWI+NQTR QQ+   IP  S+  PLYDRGYAL
Sbjct: 171 DSDEMLQSGEDTYFPALRIGMVKSSAVTFWIENQTRKQQDNAIIPLQSNYVPLYDRGYAL 230

Query: 126 GLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQN 185
           GLTS DG  N+E GLEI+ DA+RC+NC SY+HSLKECPKPRD  AVNNARKQHK KRNQN
Sbjct: 231 GLTSADGPINIERGLEIVGDAARCYNCASYNHSLKECPKPRDNAAVNNARKQHKFKRNQN 290

Query: 186 SASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDS 245
           S+SRNP RYYQ+S+GGKYDGL+PG+LD ET++LLGLGELDPPPWL+RM+ELGYPPGYLD 
Sbjct: 291 SSSRNPTRYYQSSSGGKYDGLKPGSLDTETQKLLGLGELDPPPWLNRMQELGYPPGYLDP 350

Query: 246 EDDDQPSGITIYADGEIKEGQEDGEIIETGRPAS-KRKMTTEFPGINAPIPENADERLWA 304
           +D+DQPSGITI+ADG++ E QEDGEI ET  P   +RKM+ EFPGINA IPENAD+RLW 
Sbjct: 351 DDEDQPSGITIFADGDVNEEQEDGEITETDPPPEPQRKMSVEFPGINAAIPENADQRLWE 410

Query: 305 ARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPV-----SSYPPR 359
             P+SSD  R RS HRL + SE+  R  +HEQ   R YRDDGPPGVD V     SSYPPR
Sbjct: 411 VGPTSSDPWRHRSQHRLKYSSEATGRWHHHEQ---RQYRDDGPPGVDSVFSPSMSSYPPR 467

Query: 360 YG 361
           YG
Sbjct: 468 YG 469

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  485 bits (1249), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 254/388 (65%), Positives = 296/388 (76%), Gaps = 22/388 (5%)

Query: 15  SGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NE 69
           SGVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E
Sbjct: 200 SGVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSCDDKDTE 259

Query: 70  GIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTS 129
            +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLYDRG+ LGLTS
Sbjct: 260 NLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLYDRGFTLGLTS 318

Query: 130 GDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASR 189
            + SSN+EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASR
Sbjct: 319 ANDSSNVEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASR 376

Query: 190 NPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDD 249
           N  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+D
Sbjct: 377 NSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDED 436

Query: 250 QPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSS 309
           QPSGITIYAD +  E QEDGEI E      ++K + EFPGINAPIPENADERLWA  PS+
Sbjct: 437 QPSGITIYADEKTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENADERLWAPEPSN 495

Query: 310 SDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY 365
           S  SR+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+
Sbjct: 496 SGLSRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDF 555

Query: 366 -YSSH--------SRSPTRGRSYSDRDR 384
            Y S         SRSP  GR +SDR R
Sbjct: 556 SYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  485 bits (1249), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 254/388 (65%), Positives = 295/388 (76%), Gaps = 22/388 (5%)

Query: 15  SGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NE 69
           SGVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E
Sbjct: 200 SGVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSRDDKDTE 259

Query: 70  GIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTS 129
            +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q + F+P D +  PLYDRG+ LGLTS
Sbjct: 260 NLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQTFVPIDDNSVPLYDRGFTLGLTS 318

Query: 130 GDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASR 189
            + SSN+EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASR
Sbjct: 319 ANDSSNVEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASR 376

Query: 190 NPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDD 249
           N  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+D
Sbjct: 377 NSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDED 436

Query: 250 QPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSS 309
           QPSGITIYAD +  E QEDGEI E      ++KM+ EFPGINAPIPENADERLWA  PSS
Sbjct: 437 QPSGITIYADEKTDE-QEDGEITEAEYRKPQKKMSVEFPGINAPIPENADERLWAPEPSS 495

Query: 310 SDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY 365
           S   R+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+
Sbjct: 496 SGLPRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDF 555

Query: 366 -YSSH--------SRSPTRGRSYSDRDR 384
            Y S         SRSP  GR +SDR R
Sbjct: 556 SYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  484 bits (1247), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 265/444 (59%), Positives = 316/444 (71%), Gaps = 33/444 (7%)

Query: 12  AATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGI 71
            + SG KRAR+T+DE QPSVH  YNSLTRAS+QKL+ELLQ+WS W A+  SSS+D +E +
Sbjct: 216 TSVSGAKRARITVDEYQPSVHFTYNSLTRASRQKLQELLQKWSAWHAKHVSSSSDASEVL 275

Query: 72  EFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGD 131
           E GE+TFFPA+ VG  K  AVSFW++NQTRN +NK+FIP   +  PLYDRGYALGLTS D
Sbjct: 276 ESGEETFFPALHVGLEKTSAVSFWMENQTRNDKNKDFIPLADNTVPLYDRGYALGLTSAD 335

Query: 132 GSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNP 191
           GSSN++GGLEIID A+RCFNCGSY+HSL+ECP+PRD  AVNNAR + KS+RNQNS+SR+P
Sbjct: 336 GSSNVDGGLEIIDAAARCFNCGSYNHSLRECPRPRDNIAVNNARDKLKSRRNQNSSSRHP 395

Query: 192 MRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQP 251
            RYYQNS  GKYDGLRPG+LD  TR+LLGL ELDPPPWL+RMRELGYPPGYLD +++DQP
Sbjct: 396 TRYYQNSPAGKYDGLRPGSLDDATRKLLGLRELDPPPWLNRMRELGYPPGYLDVDNEDQP 455

Query: 252 SGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAAR--PSS 309
           SGITI+ D EI + QEDGEI+E      KRK T +FPGINAPIPE ADERLW  R  PSS
Sbjct: 456 SGITIFTDSEIAD-QEDGEIMEANASKPKRKKTVKFPGINAPIPEKADERLWGTRAGPSS 514

Query: 310 SDSSRDRS--HHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDP-----VSSYPPRYGG 362
           SD SR+ S   HR N+ ++  SRG + E R   D RD+GPPG DP     + S+ PR+GG
Sbjct: 515 SDISRNLSLPQHRSNYSTDYGSRGYHREHRLG-DLRDEGPPG-DPGHSSFMFSFHPRFGG 572

Query: 363 YDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPY---------SNRHTSPPDYDLDRYR 413
           +D   S  RSP+  RS SDR R       S S P+         S RH SP D D  R  
Sbjct: 573 HD---SALRSPSMARSQSDRSRSPMHDEES-SMPFSFHSLHYSSSERHFSPLDRDSGRLG 628

Query: 414 D--------DYSREYLSRSMDEYD 429
                    D  R + SR MD +D
Sbjct: 629 SWTSESMYYDRDRVFSSRFMDRFD 652

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  484 bits (1246), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 254/388 (65%), Positives = 295/388 (76%), Gaps = 22/388 (5%)

Query: 15  SGVKRARMTL---DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NE 69
           SGVKR RM +   DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E
Sbjct: 200 SGVKRPRMAMEAMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSCDDKDTE 259

Query: 70  GIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTS 129
            +E GE+TFFPA+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLYDRG+ LGLTS
Sbjct: 260 NLESGEETFFPALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLYDRGFTLGLTS 318

Query: 130 GDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASR 189
            + SSN EGG +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASR
Sbjct: 319 ANDSSNAEGGQKIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASR 376

Query: 190 NPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDD 249
           N  RYYQNS GGKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+D
Sbjct: 377 NSTRYYQNSRGGKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDED 436

Query: 250 QPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSS 309
           QPSGITIYAD +  E QEDGEI E      ++K + EFPGINAPIPENADERLWA  PS+
Sbjct: 437 QPSGITIYADEKTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENADERLWAPEPSN 495

Query: 310 SDSSRDRSHHRLNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY 365
           S  SR+RS+ RLNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+
Sbjct: 496 SGLSRNRSNQRLNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDF 555

Query: 366 -YSSH--------SRSPTRGRSYSDRDR 384
            Y S         SRSP  GR +SDR R
Sbjct: 556 SYDSQTPRGSFSTSRSPNLGRPHSDRGR 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  469 bits (1208), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 244/384 (63%), Positives = 280/384 (72%), Gaps = 40/384 (10%)

Query: 8    IIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP 67
            +I   + SGVKRAR+T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ SSS+DP
Sbjct: 716  MIDGTSISGVKRARLTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVSSSHDP 775

Query: 68   NEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGL 127
               ++ GE+T+FPA+ VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG+ALGL
Sbjct: 776  KGQLDSGEKTYFPALHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRGFALGL 835

Query: 128  TSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSA 187
             S DG S  EG LEIID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+RNQN  
Sbjct: 836  VSEDGQSKPEGALEIID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRRNQNPG 894

Query: 188  SRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSED 247
            SRNP RYYQNS GG+YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGYLD E+
Sbjct: 895  SRNPTRYYQNSPGGRYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGYLDPEE 954

Query: 248  DDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARP 307
            ++QPSGITIYAD E+K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER WAA  
Sbjct: 955  EEQPSGITIYADEEVKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERRWAA-- 1012

Query: 308  SSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYD-YY 366
                    R H RLNH  E  SR   HEQ                      R+GG D  Y
Sbjct: 1013 ------GSRPHRRLNHSYEPSSRRNSHEQ----------------------RHGGIDSSY 1044

Query: 367  SSHS--------RSPTRGRSYSDR 382
            +S+S        RSP  GRS SDR
Sbjct: 1045 TSYSTRGNIPRPRSPNFGRSLSDR 1068

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  447 bits (1150), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 211/289 (73%), Positives = 245/289 (84%), Gaps = 1/289 (0%)

Query: 15  SGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFG 74
           SGVKR RM  DE+QPSVHV+YNSLTR+ KQKLEELLQQWSEW AQ  +SS+D NE ++ G
Sbjct: 1   SGVKRKRMAYDEQQPSVHVMYNSLTRSGKQKLEELLQQWSEWHAQ-QNSSHDSNEMLQSG 59

Query: 75  EQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSS 134
           E T+FPA+RVG  K  AVSFWI+NQ R QQ+ + I   S+  PLYDRGY LGLTS DG  
Sbjct: 60  EDTYFPALRVGMEKSSAVSFWIENQARKQQDNDLILQHSNFVPLYDRGYVLGLTSADGPI 119

Query: 135 NLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 194
           N+EGGLEI+D A+RCFNCG+Y+HSLKECPKPRD  AVNNARKQHK KRNQNS+SRNP RY
Sbjct: 120 NVEGGLEIVDAAARCFNCGAYNHSLKECPKPRDNAAVNNARKQHKFKRNQNSSSRNPTRY 179

Query: 195 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 254
           YQ+S+GGKYDGL+PG+LD ETRQLLGLGELDPPPWL+RMRELGYPPGYLD +D+DQPSGI
Sbjct: 180 YQSSSGGKYDGLKPGSLDTETRQLLGLGELDPPPWLNRMRELGYPPGYLDPDDEDQPSGI 239

Query: 255 TIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 303
           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

>gi|358346605|ref|XP_003637357.1| Zinc finger CCHC domain-containing protein [Medicago truncatula] gi|355503292|gb|AES84495.1| Zinc finger CCHC domain-containing protein [Medicago truncatula]

 Score =  428 bits (1100), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 232/357 (64%), Positives = 275/357 (77%), Gaps = 17/357 (4%)

Query: 16  GVKRARMTLDEE--QPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEF 73
           GVKRAR+T+D++  QPSVH  Y SLTRASK KL+ELLQQWS+W A+  SSSNDP+E +E 
Sbjct: 99  GVKRARITVDDDDHQPSVHFSYKSLTRASKNKLQELLQQWSQWHAKNVSSSNDPSEVLES 158

Query: 74  GEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGS 133
           GE+TFFPAI VG     +VSFW++NQ+ N +NK+  P D +  PLYDRGYALGLTS DGS
Sbjct: 159 GEETFFPAICVGHESKSSVSFWMENQSMNDRNKDVSPIDGNSVPLYDRGYALGLTSADGS 218

Query: 134 SNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMR 193
           +N + GL+IID  SRCFNCGSYSH+L+ECP+PRD  AVNNARKQ KS+RNQ+S+SRNP R
Sbjct: 219 NNADDGLKIIDAPSRCFNCGSYSHALRECPRPRDNVAVNNARKQLKSQRNQSSSSRNPTR 278

Query: 194 YYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSG 253
           YYQ+S+ GKY GLRPGALD  TRQLLGLGELDPPPWL+RMRELGYPPGYLD +++DQPSG
Sbjct: 279 YYQDSSAGKYAGLRPGALDDATRQLLGLGELDPPPWLNRMRELGYPPGYLDEDEEDQPSG 338

Query: 254 ITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAAR----PSS 309
           ITI+ D ++ E QEDGEII       KRKM+ EFPG+NAPIPENADERLWAAR    P +
Sbjct: 339 ITIFTDKDMAE-QEDGEIIGADSSKPKRKMSVEFPGLNAPIPENADERLWAARAVVSPIA 397

Query: 310 SDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVS-----SYPPRYG 361
            D SR+ S  R    S   SRG  H+QR   D RDDGPPG DP+      S+ PR+G
Sbjct: 398 IDISRNWSQQR---SSSFGSRGHQHDQRIG-DLRDDGPPG-DPMHNSSHFSFQPRFG 449

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	438
TAIR|locus:2159818	532	AT5G38600 [Arabidopsis thalian	0.808	0.665	0.576	1.5e-106
TAIR|locus:2809302	405	AT1G67210 [Arabidopsis thalian	0.668	0.723	0.607	3.7e-99
UNIPROTKB|E2QXB5	709	ZCCHC8 "Uncharacterized protei	0.367	0.227	0.335	5e-19
MGI|MGI:1917900	709	Zcchc8 "zinc finger, CCHC doma	0.347	0.214	0.320	1.2e-18
UNIPROTKB|Q5F3D1	613	ZCCHC8 "Zinc finger CCHC domai	0.351	0.251	0.312	1.4e-18
RGD|1309774	695	Zcchc8 "zinc finger, CCHC doma	0.347	0.218	0.314	1.5e-18
UNIPROTKB|F1MM78	710	ZCCHC8 "Uncharacterized protei	0.337	0.208	0.322	6.1e-18
UNIPROTKB|F1NEG3	684	F1NEG3 "Uncharacterized protei	0.351	0.225	0.314	9.6e-18
UNIPROTKB|Q6NZY4	707	ZCCHC8 "Zinc finger CCHC domai	0.367	0.227	0.329	1e-17
ZFIN|ZDB-GENE-060526-6	694	zcchc8 "zinc finger, CCHC doma	0.312	0.197	0.355	5.1e-17

TAIR|locus:2159818 AT5G38600 [Arabidopsis thaliana (taxid:3702)]

 Score = 1054 (376.1 bits), Expect = 1.5e-106, P = 1.5e-106
 Identities = 223/387 (57%), Positives = 267/387 (68%)

Query:     3 LILFSIIKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS 62
             L+  + + +++ +GVKR R + DE+QP+VHV Y  LTRASKQKLE LLQ+WSEW+A+  S
Sbjct:    96 LVHSTTLDVSSKAGVKRPRTSYDEQQPTVHVTYKHLTRASKQKLESLLQKWSEWEAENTS 155

Query:    63 SSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRG 122
              + D  +  E GE+T FPAIRVG  K  +VSFWIDNQT ++  ++F+  +S  TPLYDR 
Sbjct:   156 LAQDQEQLFESGEETCFPAIRVGLQKTSSVSFWIDNQTGHKPLEDFVLVESSTTPLYDRK 215

Query:   123 YALGLTSGDGSSNLEGGLEIIDD-ASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSK 181
             +A+GL S DGS N+EGGLEIIDD   RCFNCG YSHSL+ECP+P D+ AVN+ARK  KSK
Sbjct:   216 FAIGLNSADGSRNVEGGLEIIDDDPPRCFNCGGYSHSLRECPRPFDRSAVNSARKLQKSK 275

Query:   182 RNQNSAS-RNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPP 240
             RNQNS+  R P RYYQ +  GKYDGL+PG LDAETRQLL LGELDPPPWL+RMRE+GYPP
Sbjct:   276 RNQNSSGPRLPSRYYQKTQTGKYDGLKPGTLDAETRQLLNLGELDPPPWLNRMREIGYPP 335

Query:   241 GYLDSEDDDQPSGITIYADG-EIKEG--QEDGEIIETGR--PASKRKMTTEFPGINAPIP 295
             GYL  EDD   SGITI+ +  E +E    EDGEI+E     P  + K T EFPGINAP P
Sbjct:   336 GYLAPEDDHL-SGITIFGEEVETREEIESEDGEILEKANHPPEPQMKKTVEFPGINAPFP 394

Query:   296 ENADERLWAAXXXXXXXXXXXXXXXXXXXXESISRGRYHEQRWSR--DYRDDGPPGVDPV 353
             ENADE LW A                     S   GR+ +Q+ SR  DYRDDGP GV+P 
Sbjct:   395 ENADEWLWEAAPSHR---------------NSSRSGRWQQQKTSRGHDYRDDGPLGVEP- 438

Query:   354 SSYPPRYGG-YDY------YSSHSRSP 373
             SSYPPRYG  YDY      Y S SRSP
Sbjct:   439 SSYPPRYGSRYDYGYGSNEYGSRSRSP 465

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

TAIR|locus:2809302 AT1G67210 [Arabidopsis thaliana (taxid:3702)]

 Score = 952 (340.2 bits), Expect = 3.7e-99, Sum P(2) = 3.7e-99
 Identities = 183/301 (60%), Positives = 224/301 (74%)

Query:     9 IKMAATSGVKRARMTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPN 68
             + +++ SGVKRAR    E+QPSVHV Y  LTR SKQKLE LLQQWSEW+A+  S S D  
Sbjct:    60 VDVSSKSGVKRARTISLEQQPSVHVTYKHLTRDSKQKLESLLQQWSEWEAEQNSLSEDQE 119

Query:    69 EGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLT 128
             + +E G++T+FPA+RVG  K  +VSFW D QT +  +K  +P +S  TPLY+RG+ +GL 
Sbjct:   120 QVLEAGDETYFPALRVGLQKTSSVSFWFDYQTGHSSSKKSVPVESSTTPLYNRGFTIGLD 179

Query:   129 SGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSAS 188
             SG  S+N+EGGLEIIDD  RCFNCG+YSHS++ECP+P D+ AV+NAR+QHK KRNQ   S
Sbjct:   180 SG--SNNVEGGLEIIDDPPRCFNCGAYSHSIRECPRPFDRSAVSNARRQHKRKRNQTPGS 237

Query:   189 RNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD-SED 247
             R P RYYQ+   GKYDGL+PG+LDAETR+LLGL ELDPPPWL+RMRE+GYPPGY    ED
Sbjct:   238 RLPSRYYQSLQRGKYDGLKPGSLDAETRKLLGLKELDPPPWLNRMREIGYPPGYFAVEED 297

Query:   248 DDQPSGITIYADGEIKEGQE----DGEIIETGRPASKRK-MTTEFPGINAPIPENADERL 302
             DD  S ITI+ + E KE +E    +GEI+E   P   RK MT  FPGINAPIPENAD  L
Sbjct:   298 DDDHSRITIFGEEETKEEEEVKTEEGEILEKASPQEPRKIMTVGFPGINAPIPENADSWL 357

Query:   303 W 303
             W
Sbjct:   358 W 358

GO:0003676 "nucleic acid binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E2QXB5 ZCCHC8 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 253 (94.1 bits), Expect = 5.0e-19, P = 5.0e-19
 Identities = 60/179 (33%), Positives = 94/179 (52%)

Query:   135 NLEGGLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRN 190
             +LEG  EI   A R    CFNCGS  H +K+CP PR+   ++  RK++    ++ ++   
Sbjct:   212 SLEGQ-EIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACSETNSQNF 270

Query:   191 PMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQ 250
               RY+      ++   +PG +  E +  LGL +   PP+++RMR+LGYPPG+L  E + +
Sbjct:   271 QQRYHAEEVEERFGRFKPGVISEELQDALGLTDKSLPPFIYRMRQLGYPPGWL-KEAELE 329

Query:   251 PSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 303
              SG+ +Y DG  K+G  DGE  E G     + +T +      +PG N   P    +  W
Sbjct:   330 NSGLALY-DG--KDGA-DGEA-EAGETQQNKSVTYDLSKLVNYPGFNISTPRGIPDE-W 382

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

MGI|MGI:1917900 Zcchc8 "zinc finger, CCHC domain containing 8" [Mus musculus (taxid:10090)]

 Score = 250 (93.1 bits), Expect = 1.2e-18, P = 1.2e-18
 Identities = 50/156 (32%), Positives = 80/156 (51%)

Query:   149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 208
             CFNCGS  H +KECP PR+   ++  RK++     + S      RY+      ++   +P
Sbjct:   232 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEASGQSFQQRYHAEEVEERFGRFKP 291

Query:   209 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ-E 267
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y   +  +G+ E
Sbjct:   292 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALYDGNDDADGETE 350

Query:   268 DGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 303
              GEI          K+   +PG N   P    +  W
Sbjct:   351 TGEIQNKNVTYDLSKLVN-YPGFNISTPRGIPDE-W 384

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=ISO

UNIPROTKB|Q5F3D1 ZCCHC8 "Zinc finger CCHC domain-containing protein 8" [Gallus gallus (taxid:9031)]

 Score = 246 (91.7 bits), Expect = 1.4e-18, Sum P(2) = 1.4e-18
 Identities = 49/157 (31%), Positives = 77/157 (49%)

Query:   147 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 206
             S CFNCGS  H +K+CPKPR+   ++  RK+      + S      RY+      ++   
Sbjct:   126 SHCFNCGSEEHQIKDCPKPRNAARISEKRKEFMEAYGEASNQNFQQRYHAEEVEERFGKF 185

Query:   207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ 266
             +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+     
Sbjct:   186 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKDDNET 243

Query:   267 EDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 303
             ED   ++             +PG N   P    +  W
Sbjct:   244 EDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDE-W 279

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|1309774 Zcchc8 "zinc finger, CCHC domain containing 8" [Rattus norvegicus (taxid:10116)]

 Score = 249 (92.7 bits), Expect = 1.5e-18, P = 1.5e-18
 Identities = 49/156 (31%), Positives = 81/156 (51%)

Query:   149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 208
             CFNCGS  H +KECP PR+   ++  RK++     + ++     RY+      ++   +P
Sbjct:   231 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEANSQSFQQRYHAEEVEERFGRFKP 290

Query:   209 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ-E 267
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y   +  +G+ E
Sbjct:   291 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELETSGLALYDGNDDADGETE 349

Query:   268 DGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 303
              GEI          K+   +PG N   P    +  W
Sbjct:   350 TGEIQNKNVTYDLSKLVN-YPGFNISTPRGIPDE-W 383

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|F1MM78 ZCCHC8 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 244 (91.0 bits), Expect = 6.1e-18, P = 6.1e-18
 Identities = 52/161 (32%), Positives = 84/161 (52%)

Query:   149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 208
             CFNCGS  H +K+CP PR+   ++  RK++     + +      RY+      ++   +P
Sbjct:   231 CFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGETNNQNFQQRYHAEEVEERFGRFKP 290

Query:   209 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQED 268
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y DG  K+G  D
Sbjct:   291 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALY-DG--KDGA-D 345

Query:   269 GEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 303
             GE  E G     + +T +      +PG N   P    +  W
Sbjct:   346 GET-EAGEVQQNKSVTYDLSKLVNYPGFNISTPRGIPDE-W 384

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1NEG3 F1NEG3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 242 (90.2 bits), Expect = 9.6e-18, P = 9.6e-18
 Identities = 50/159 (31%), Positives = 80/159 (50%)

Query:   147 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 206
             S CFNCGS  H +K+CPKPR+   ++  RK+      + S      RY+      ++   
Sbjct:   222 SHCFNCGSEEHQIKDCPKPRNAARISEKRKEFMEAYGEASNQNFQQRYHAEEVEERFGKF 281

Query:   207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE-IKEG 265
             +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+ I + 
Sbjct:   282 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKGIDDN 339

Query:   266 Q-EDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 303
             + ED   ++             +PG N   P    +  W
Sbjct:   340 ETEDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDE-W 377

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

UNIPROTKB|Q6NZY4 ZCCHC8 "Zinc finger CCHC domain-containing protein 8" [Homo sapiens (taxid:9606)]

 Score = 242 (90.2 bits), Expect = 1.0e-17, P = 1.0e-17
 Identities = 59/179 (32%), Positives = 92/179 (51%)

Query:   135 NLEGGLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRN 190
             +LEG  EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +    
Sbjct:   212 SLEGQ-EIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNF 270

Query:   191 PMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQ 250
               RY+      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + +
Sbjct:   271 QQRYHAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELE 329

Query:   251 PSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 303
              SG+ +Y DG  K+G  DGE  E G     + +T +      +PG N   P    +  W
Sbjct:   330 NSGLALY-DG--KDGT-DGET-EVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDE-W 382

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000398 "mRNA splicing, via spliceosome" evidence=IC

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

ZFIN|ZDB-GENE-060526-6 zcchc8 "zinc finger, CCHC domain containing 8" [Danio rerio (taxid:7955)]

 Score = 236 (88.1 bits), Expect = 5.1e-17, P = 5.1e-17
 Identities = 53/149 (35%), Positives = 80/149 (53%)

Query:   149 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 208
             CFNC S  H L++CPKP+D   +N  RK+     +QN+  R+  RY+      ++   +P
Sbjct:   221 CFNCCSEDHQLRDCPKPKDMARINEKRKEF----SQNN--RSNQRYHAEEVEERFAKYKP 274

Query:   209 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQED 268
             G +  +    LG+     PP+++RMRELGYPPG+L  E + + SG+ +Y DG   +G E+
Sbjct:   275 GIMSQDLLDALGMTTNTLPPFIYRMRELGYPPGWL-KEAELENSGLMLY-DGS-NDGDEN 331

Query:   269 GEIIETGRPASKRKMTTEFPGINAPIPEN 297
                 +     SK     +FPG N   P N
Sbjct:   332 NHSQKISYDVSK---LVDFPGFNVNAPPN 357

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	438
pfam04046	48	pfam04046, PSP, PSP	6e-14
smart00581	54	smart00581, PSP, proline-rich domain in spliceosom	3e-11
COG5182	429	COG5182, CUS1, Splicing factor 3b, subunit 2 [RNA	2e-05
pfam14392	49	pfam14392, zf-CCHC_4, Zinc knuckle	7e-04

>gnl|CDD|202864 pfam04046, PSP, PSP

 Score = 65.2 bits (160), Expect = 6e-14
 Identities = 23/36 (63%), Positives = 27/36 (75%)

Query: 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 242
           +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 = 58.1 bits (141), Expect = 3e-11
 Identities = 23/50 (46%), Positives = 30/50 (60%)

Query: 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITI 256
           +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 = 46.5 bits (110), Expect = 2e-05
 Identities = 20/38 (52%), Positives = 25/38 (65%)

Query: 207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 244
           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 = 36.8 bits (86), Expect = 7e-04
 Identities = 11/17 (64%), Positives = 12/17 (70%)

Query: 148 RCFNCGSYSHSLKECPK 164
            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	438
KOG2673	485	consensus Uncharacterized conserved protein, conta	100.0
KOG2330	500	consensus Splicing factor 3b, subunit 2 [RNA proce	99.89
smart00581	54	PSP proline-rich domain in spliceosome associated	99.88
PF04046	48	PSP: PSP; InterPro: IPR006568 PSP is a proline-ric	99.83
COG5182	429	CUS1 Splicing factor 3b, subunit 2 [RNA processing	99.75
KOG2673	485	consensus Uncharacterized conserved protein, conta	98.69
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	97.29
PF14392	49	zf-CCHC_4: Zinc knuckle	91.28
smart00343	26	ZnF_C2HC zinc finger.	90.12
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	89.63
PF13696	32	zf-CCHC_2: Zinc knuckle	89.42
PTZ00368	148	universal minicircle sequence binding protein (UMS	84.96
PTZ00368	148	universal minicircle sequence binding protein (UMS	84.91

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

Probab=100.00  E-value=1.4e-46  Score=383.32  Aligned_cols=295  Identities=32%  Similarity=0.524  Sum_probs=227.8

Q ss_pred             HhhcCCCCC-CCcceeccccceecceeccCCCCCceeEEEecCCcccccCCCcCCCCCCCCccccccccccccCCCCCCc
Q 013677           58 AQFGSSSND-PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNL  136 (438)
Q Consensus        58 A~~~~~s~d-~~e~~esG~~t~fpa~~vg~~k~~avsF~~D~~~~~~~n~~~~~~~~~eVPlYdr~~~~~L~s~Dg~s~~  136 (438)
                      ++..+...+ ..+++.+++.+|+| +.+++.+..+++||++++....--+++.+.+...    ||.++.+|.+.+++.++
T Consensus        45 ~r~esg~i~~qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~t----dr~~a~~l~sq~~s~tv  119 (485)
T KOG2673|consen   45 GRFESGVISEQQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDST----DRETAVGLISQNKSVTV  119 (485)
T ss_pred             ccccccccchHHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhccccccc----cccceecccccccchhh
Confidence            433333333 46788887778887 8899999999999999999887777777666653    99999999999999988


Q ss_pred             CCCcccccCCCceeccCCCCCCCCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeecccCccccCCCCCcCCHHHH
Q 013677          137 EGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETR  216 (438)
Q Consensus       137 e~~~Ei~~~~~~CFNCG~~~HsLrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYyegk~e~k~~~fkPG~LS~eLR  216 (438)
                      +++..|.. .-.|||||++.|+|+|||+|+|+++|+.+||+++..++|        |||....-++++|||||+||.+||
T Consensus       120 ek~~~v~~-~~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rnq--------ry~~~teq~re~h~KPG~lS~~~R  190 (485)
T KOG2673|consen  120 EKSKLVNK-CDPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRNQ--------RYYQDTEQGREDHFKPGVLSGNTR  190 (485)
T ss_pred             hhhhhhcc-CccccccCCCCCccccCCCccccHHHHHHHHhhccccce--------eeeeecchhhhcccCCcccchhHH
Confidence            88766654 455999999999999999999999999999999887764        899887666999999999999999


Q ss_pred             HHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCCCCCcchhccCCCCCCCeeeeecCCCCCC-CC
Q 013677          217 QLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAP-IP  295 (438)
Q Consensus       217 eALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~~EDgEi~e~~~~~~~~kk~V~fPGFNaP-iP  295 (438)
                      .|||+.+++||+|+||||++||||||+.++ ..+.+||+||+...   .++|.|+.....|+++.+|++.|||||.+ .|
T Consensus       191 ~al~l~~~d~P~~~yRMR~lGYPPg~L~~s-~~e~s~i~if~eet---~~~dee~ese~PP~~~~~K~~~f~gfn~~~~p  266 (485)
T KOG2673|consen  191 SALGLSPGDPPEWKYRMRRLGYPPGYLRKS-DMEVSGIKIFSEET---FQFDEELESETPPEPQGTKPVVFPGFNPKGTP  266 (485)
T ss_pred             HhhcCCCCCchHHHHHHhhccCCchhhhhh-hcccccceeecccc---cccCcccCCCCCCCCCCCCCcccCCCCCCCCC
Confidence            999999999999999999999999999987 56899999997222   22222332334678899999999999999 99


Q ss_pred             CCcchhccccCCCCCCcccccccccccCCCCCccccccccccccccccCCCCCCCCCCCCCCCCCCC-CCC-CCC-CCCC
Q 013677          296 ENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGG-YDY-YSS-HSRS  372 (438)
Q Consensus       296 ~gad~~~wg~~P~~~~~~r~~~~~~~~~~~e~~~r~~~~~~r~~~~~~d~gp~g~~~~~~~~pr~~~-~~~-y~~-~~~~  372 (438)
                      +...++.|..   ..++|+..-+..             .-.-...++++|+|.|++++.++++++|. +|. |.. ..+|
T Consensus       267 ~~~~e~~ke~---~r~~s~s~~q~~-------------l~~~~l~~k~~dl~~~~e~s~~~~~~~~t~~D~~~~~~~~~s  330 (485)
T KOG2673|consen  267 PNDREDSKEA---PRDASCSVDQDA-------------LTLSRLEKKQRDLPAGLEQSESAPSDSGTEVDDPLTENEVAS  330 (485)
T ss_pred             CCChhhcccc---cchhhhhhhHHH-------------hhhhHHHHHhhhcccccccccCCCcccCCccccccccccccc
Confidence            9999888876   234443211111             11111237889999999999999999998 666 322 1112


Q ss_pred             CCCCCCCCCCCCCc
Q 013677          373 PTRGRSYSDRDRDD  386 (438)
Q Consensus       373 p~~~rs~sdr~~~~  386 (438)
                      -...++++-++-++
T Consensus       331 ~~~~~sl~~p~~ed  344 (485)
T KOG2673|consen  331 EPRPNSLDLPVPED  344 (485)
T ss_pred             ccCCcccCCCCCCC
Confidence            22225666666554

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

Probab=99.89  E-value=7.3e-24  Score=216.15  Aligned_cols=82  Identities=33%  Similarity=0.638  Sum_probs=76.5

Q ss_pred             CCCCCceEeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCC
Q 013677          187 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG  265 (438)
Q Consensus       187 ~sr~GdrYyegk-~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~  265 (438)
                      .+.+|+.||+++ .+..+++.+||.||+|||.||||+.+.|||||++||++|+|||||+                     
T Consensus       251 lt~~Ge~yyegke~e~~~k~k~PG~iS~eLr~aLgmp~g~pPPWl~aMqryGpPpsYPd---------------------  309 (500)
T KOG2330|consen  251 LTKFGELYYEGKELEAMVKEKKPGDISDELRIALGMPVGTPPPWLIAMQRYGPPPSYPD---------------------  309 (500)
T ss_pred             eeecceeeecchhHHHHHhhcCccchhHHHHHHhCCCCCCCChHHHHhhhcCCCCCCCc---------------------
Confidence            578999999998 5677899999999999999999999999999999999999999995                     


Q ss_pred             CCCcchhccCCCCCCCeeeeecCCCCCCCCCCcchhccccCCCCCC
Q 013677          266 QEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSD  311 (438)
Q Consensus       266 ~EDgEi~e~~~~~~~~kk~V~fPGFNaPiP~gad~~~wg~~P~~~~  311 (438)
                                         ++|||+|+|||+|+.   ||++|++|.
T Consensus       310 -------------------lkIpGLNapIPeg~s---~Gyh~gGWG  333 (500)
T KOG2330|consen  310 -------------------LKIPGLNAPIPEGCS---FGYHAGGWG  333 (500)
T ss_pred             -------------------ccCCCCCCCCCcccc---cccccCCCc
Confidence                               789999999999999   888888773

>smart00581 PSP proline-rich domain in spliceosome associated proteins

Probab=99.88  E-value=2.1e-23  Score=160.84  Aligned_cols=42  Identities=52%  Similarity=1.112  Sum_probs=40.7

Q ss_pred             ccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 013677          203 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  244 (438)
Q Consensus       203 ~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~  244 (438)
                      |++||||+||+|||+||||.++++||||++||++|||||||+
T Consensus         1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~   42 (54)
T smart00581        1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR   42 (54)
T ss_pred             CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence            578999999999999999999999999999999999999995

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

Probab=99.83  E-value=4.2e-21  Score=145.09  Aligned_cols=38  Identities=66%  Similarity=1.307  Sum_probs=37.0

Q ss_pred             CCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 013677          207 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  244 (438)
Q Consensus       207 kPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~  244 (438)
                      |||+||++||+||||.++++||||++||++||||||++
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            79999999999999999999999999999999999974

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

Probab=99.75  E-value=1.1e-18  Score=174.80  Aligned_cols=81  Identities=38%  Similarity=0.667  Sum_probs=70.5

Q ss_pred             CCCCCceEeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCeeeecCCCccCC
Q 013677          187 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG  265 (438)
Q Consensus       187 ~sr~GdrYyegk-~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~  265 (438)
                      .+.||+.||+++ .....++.+||.||+|||+||||.+++|||||.+||++|+|||||+                     
T Consensus       258 L~~fGe~y~e~~n~~~~vk~krPG~IS~eLrealgi~~g~pPPWlf~Mq~~G~PpsYPD---------------------  316 (429)
T COG5182         258 LSKFGEFYEEVDNDYRFVKKKRPGAISAELREALGIDSGTPPPWLFNMQKHGMPPSYPD---------------------  316 (429)
T ss_pred             cccccceeeccchHHHHHhccCCcchHHHHHHHhCCCCCCCChHHHhhhhcCCCCCCcc---------------------
Confidence            578999999998 4445689999999999999999999999999999999999999995                     


Q ss_pred             CCCcchhccCCCCCCCeeeeecCCCC-CCCC-CCcchhccccCCCCC
Q 013677          266 QEDGEIIETGRPASKRKMTTEFPGIN-APIP-ENADERLWAARPSSS  310 (438)
Q Consensus       266 ~EDgEi~e~~~~~~~~kk~V~fPGFN-aPiP-~gad~~~wg~~P~~~  310 (438)
                                         ++|||+| +++| +|.-   ||+.|..|
T Consensus       317 -------------------lkIpGlNW~~~pL~Gdv---yG~~~p~~  341 (429)
T COG5182         317 -------------------LKIPGLNWAPIPLEGDV---YGYQPPGW  341 (429)
T ss_pred             -------------------ccCCCCCCCCccccccc---ccccCCCc
Confidence                               7899999 8888 5544   77766655

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

Probab=98.69  E-value=1e-08  Score=106.81  Aligned_cols=137  Identities=22%  Similarity=0.358  Sum_probs=102.5

Q ss_pred             CCCCCCccCHHHHHHHHHHHHhhhccCCCCCCCceEeecccCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCC
Q 013677          159 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY  238 (438)
Q Consensus       159 LrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYyegk~e~k~~~fkPG~LS~eLReALGm~~~dpPPWL~rMr~~Gy  238 (438)
                      +++||.|+| ++|+..|++++.+-..-+..-++.+++..........+.+|.|| ++.++|+-.+.+.+|++++||++|+
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            579999999 99999999998764333333456888877777888999999999 8899999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCeeeecCCCc-cCCCCCcchhccCCCCCCCeeeeecC--CCCC-CCCCCc
Q 013677          239 PPGYLDSEDDDQPSGITIYADGEI-KEGQEDGEIIETGRPASKRKMTTEFP--GINA-PIPENA  298 (438)
Q Consensus       239 PPgYp~~a~~~q~SGl~IF~Dg~~-~~~~EDgEi~e~~~~~~~~kk~V~fP--GFNa-PiP~ga  298 (438)
                      |+.|++.+. .+.+|..||.-... +-..+.|.+..+.....+.++.|.++  =||. -.|.++
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            999998554 45788888842221 23455666655555555566666666  4544 456655

>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=97.29  E-value=0.00012  Score=45.52  Aligned_cols=18  Identities=50%  Similarity=1.315  Sum_probs=16.5

Q ss_pred             CceeccCCCCCCCCCCCC
Q 013677          147 SRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~  164 (438)
                      ..|||||..+|..++||+
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            379999999999999995

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=91.28  E-value=0.072  Score=40.11  Aligned_cols=19  Identities=58%  Similarity=1.183  Sum_probs=17.5

Q ss_pred             CCceeccCCCCCCCCCCCC
Q 013677          146 ASRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~  164 (438)
                      ...||+||..+|..++||+
T Consensus        31 p~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   31 PRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             ChhhcCCCCcCcCHhHcCC
Confidence            4789999999999999994

>smart00343 ZnF_C2HC zinc finger

Probab=90.12  E-value=0.14  Score=33.62  Aligned_cols=18  Identities=44%  Similarity=1.309  Sum_probs=16.1

Q ss_pred             ceeccCCCCCCCCCCCCc
Q 013677          148 RCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       148 ~CFNCG~~~HsLrdCP~P  165 (438)
                      .||+||..+|..++||..
T Consensus         1 ~C~~CG~~GH~~~~C~~~   18 (26)
T smart00343        1 KCYNCGKEGHIARDCPKX   18 (26)
T ss_pred             CCccCCCCCcchhhCCcc
Confidence            499999999999999943

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

Probab=89.63  E-value=0.16  Score=48.78  Aligned_cols=19  Identities=42%  Similarity=1.167  Sum_probs=17.8

Q ss_pred             CCCceeccCCCCCCCCCCC
Q 013677          145 DASRCFNCGSYSHSLKECP  163 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP  163 (438)
                      ....|||||+.+|..+|||
T Consensus        59 ~~~~C~nCg~~GH~~~DCP   77 (190)
T COG5082          59 ENPVCFNCGQNGHLRRDCP   77 (190)
T ss_pred             cccccchhcccCcccccCC
Confidence            4689999999999999999

>PF13696 zf-CCHC_2: Zinc knuckle

Probab=89.42  E-value=0.16  Score=36.28  Aligned_cols=20  Identities=30%  Similarity=0.884  Sum_probs=18.1

Q ss_pred             CCCceeccCCCCCCCCCCCC
Q 013677          145 DASRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~  164 (438)
                      ..-.|+-|+..+|-++|||.
T Consensus         7 ~~Y~C~~C~~~GH~i~dCP~   26 (32)
T PF13696_consen    7 PGYVCHRCGQKGHWIQDCPT   26 (32)
T ss_pred             CCCEeecCCCCCccHhHCCC
Confidence            35789999999999999997

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

Probab=84.96  E-value=0.54  Score=41.94  Aligned_cols=23  Identities=35%  Similarity=0.892  Sum_probs=19.4

Q ss_pred             CCCceeccCCCCCCCCCCCCccC
Q 013677          145 DASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ....||||+..+|..++||.+++
T Consensus        26 ~~~~C~~Cg~~GH~~~~Cp~~~~   48 (148)
T PTZ00368         26 KARPCYKCGEPGHLSRECPSAPG   48 (148)
T ss_pred             CCccCccCCCCCcCcccCcCCCC
Confidence            35789999999999999998764

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

Probab=84.91  E-value=0.47  Score=42.32  Aligned_cols=20  Identities=35%  Similarity=1.022  Sum_probs=17.9

Q ss_pred             CceeccCCCCCCCCCCCCcc
Q 013677          147 SRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~PR  166 (438)
                      +.||||+..+|..++||.+.
T Consensus         1 ~~C~~C~~~GH~~~~c~~~~   20 (148)
T PTZ00368          1 MVCYRCGGVGHQSRECPNSA   20 (148)
T ss_pred             CcCCCCCCCCcCcccCcCCC
Confidence            47999999999999999854

---

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	438
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-11
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	4e-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 = 64.1 bits (155), Expect = 5e-11
 Identities = 81/528 (15%), Positives = 135/528 (25%), Gaps = 194/528 (36%)

Query: 2   LLILFSIIKMAATSGVKR--------------ARMTLDEEQPS---------VHVIYNS- 37
            L LF  +       V++              + +  ++ QPS            +YN  
Sbjct: 64  TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123

Query: 38  -------LTRASK-QKLEELLQQWSEWQAQFGSSSNDPNEGIE------FGEQTFFPAIR 83
                  ++R     KL + L +              P + +        G+     A+ 
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLEL------------RPAKNVLIDGVLGSGKTWV--ALD 169

Query: 84  VGKAKGPAVS-----FWI-------DNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGD 131
           V  +           FW+                K     D + T   D    + L    
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 132 GSSNL---------EGGLEIIDDAS-----RCFNCGSYSHSLKECP---KPRDK---DAV 171
             + L         E  L ++ +         FN          C      R K   D +
Sbjct: 230 IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS--------CKILLTTRFKQVTDFL 281

Query: 172 NNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLH 231
           + A   H S                       D         E + LL         +L 
Sbjct: 282 SAATTTHIS----------------------LDHHSMTLTPDEVKSLLLK-------YLD 312

Query: 232 -RMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG----------QED--GEIIETG--- 275
            R ++L  P           P  ++I A+  I++G            D    IIE+    
Sbjct: 313 CRPQDL--PR----EVLTTNPRRLSIIAE-SIRDGLATWDNWKHVNCDKLTTIIESSLNV 365

Query: 276 -RPASKRKMTTE---FPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNH-HSESISR 330
             PA  RKM      FP  +A IP      +W       D  +      +N  H  S+  
Sbjct: 366 LEPAEYRKMFDRLSVFPP-SAHIPTILLSLIW------FDVIKSDVMVVVNKLHKYSLV- 417

Query: 331 GRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASH 390
                ++  ++                        Y               +  ++YA H
Sbjct: 418 -----EKQPKEST----------------ISIPSIY----------LELKVKLENEYALH 446

Query: 391 GSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSM------DEYDRFR 432
            S    Y+   T   D  +  Y D Y   ++   +      +    FR
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 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 = 37.6 bits (87), Expect = 4e-04
 Identities = 10/25 (40%), Positives = 11/25 (44%)

Query: 144 DDASRCFNCGSYSHSLKECPKPRDK 168
               RC+NCG   H  KEC  P   
Sbjct: 5   SSGDRCYNCGGLDHHAKECKLPPQP 29

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	438
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	97.33
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	97.18
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	96.68
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	96.09
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	95.98
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	95.83
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	95.58
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	95.41
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	95.18
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	94.96
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	94.69
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	94.61
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	94.6
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	94.18
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	94.15
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	94.1
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	94.09
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	93.77
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	93.22
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	93.04
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	92.91
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	92.11
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	90.91
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	90.38
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	89.07
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	87.11
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	85.97

>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=97.33  E-value=6.3e-05  Score=50.19  Aligned_cols=22  Identities=45%  Similarity=1.081  Sum_probs=19.7

Q ss_pred             CCceeccCCCCCCCCCCCCccC
Q 013677          146 ASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ...|||||.++|..++||.|+-
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            3679999999999999999973

>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=96.68  E-value=0.00076  Score=48.67  Aligned_cols=23  Identities=35%  Similarity=0.735  Sum_probs=20.6

Q ss_pred             CCCceeccCCCCCCCCCCCCccC
Q 013677          145 DASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ....|||||..+|-.+|||.++.
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            46899999999999999998764

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

Probab=96.09  E-value=0.0021  Score=44.95  Aligned_cols=19  Identities=47%  Similarity=1.209  Sum_probs=16.1

Q ss_pred             ceeccCCCCCCCCCCCCcc
Q 013677          148 RCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       148 ~CFNCG~~~HsLrdCP~PR  166 (438)
                      .|||||..+|..++||.|+
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            6899998899999998774

>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=95.98  E-value=0.0029  Score=46.41  Aligned_cols=21  Identities=48%  Similarity=1.137  Sum_probs=15.0

Q ss_pred             CCceeccCCCCCCCCCCCCcc
Q 013677          146 ASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ...|||||..+|..++||.|+
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            356777777777777777664

>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=95.83  E-value=0.003  Score=48.54  Aligned_cols=24  Identities=33%  Similarity=0.649  Sum_probs=20.8

Q ss_pred             cCCCceeccCCCCCCCCCCCCccC
Q 013677          144 DDASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       144 ~~~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      .....|||||..+|-.+|||.+..
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            346899999999999999998764

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

Probab=95.58  E-value=0.0051  Score=42.56  Aligned_cols=18  Identities=39%  Similarity=1.056  Sum_probs=12.2

Q ss_pred             ceeccCCCCCCCCCCCCc
Q 013677          148 RCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       148 ~CFNCG~~~HsLrdCP~P  165 (438)
                      .|||||..+|..++||.|
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            477777777777777654

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

Probab=95.41  E-value=0.0053  Score=46.78  Aligned_cols=18  Identities=44%  Similarity=1.073  Sum_probs=9.0

Q ss_pred             ceeccCCCCCCCCCCCCc
Q 013677          148 RCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       148 ~CFNCG~~~HsLrdCP~P  165 (438)
                      .|||||...|..++||.+
T Consensus         6 ~C~~Cg~~GH~a~~C~~~   23 (61)
T 2ihx_A            6 LCYTCGSPGHYQAQCPKK   23 (61)
T ss_dssp             BCSSSCCBTCCGGGCTTT
T ss_pred             cccccCCCCeehhhCcCC
Confidence            455555555555555544

>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=95.18  E-value=0.0072  Score=44.84  Aligned_cols=19  Identities=47%  Similarity=1.136  Sum_probs=12.9

Q ss_pred             CceeccCCCCCCCCCCCCc
Q 013677          147 SRCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~P  165 (438)
                      ..|||||..+|..++||.|
T Consensus        13 ~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           13 VKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             CBCTTTCCBSSCGGGCSSC
T ss_pred             cceeeeCCCCcChhhcCCC
Confidence            5577777767777777665

>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=94.96  E-value=0.012  Score=45.30  Aligned_cols=19  Identities=53%  Similarity=1.268  Sum_probs=10.5

Q ss_pred             CceeccCCCCCCCCCCCCc
Q 013677          147 SRCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~P  165 (438)
                      ..|||||..+|..++||.+
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            4455555555555555544

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

Probab=94.69  E-value=0.0082  Score=45.94  Aligned_cols=19  Identities=42%  Similarity=1.102  Sum_probs=17.2

Q ss_pred             CCceeccCCCCCCCCCCCC
Q 013677          146 ASRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~  164 (438)
                      ...||.||..+|.+++||.
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            4689999999999999993

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

Probab=94.61  E-value=0.015  Score=40.67  Aligned_cols=19  Identities=47%  Similarity=1.186  Sum_probs=17.4

Q ss_pred             CCceeccCCCCCCCCCCCC
Q 013677          146 ASRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~  164 (438)
                      ...|||||..+|..++||+
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            4789999999999999995

>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=94.60  E-value=0.017  Score=43.56  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.7

Q ss_pred             CCceeccCCCCCCCCCCCCccC
Q 013677          146 ASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ...||+||..+|..+|||.+.+
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            4789999999999999998765

>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=94.18  E-value=0.0084  Score=45.22  Aligned_cols=21  Identities=33%  Similarity=0.831  Sum_probs=0.0

Q ss_pred             CceeccCCCCCCCCCCCCccC
Q 013677          147 SRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ..|||||..+|..++||.+.+
T Consensus         2 ~~Cf~Cg~~GH~a~~C~~~~~   22 (60)
T 1cl4_A            2 GSCFKCGKKGHFAKNCHEHAH   22 (60)
T ss_dssp             ---------------------
T ss_pred             CccccCCCCCcCHhhCcCCCC
Confidence            369999999999999997765

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

Probab=94.15  E-value=0.015  Score=44.33  Aligned_cols=23  Identities=30%  Similarity=0.679  Sum_probs=19.1

Q ss_pred             CCceeccCCCCCCCCCCCCccCH
Q 013677          146 ASRCFNCGSYSHSLKECPKPRDK  168 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PRd~  168 (438)
                      ...|||||...|..++||.++..
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            36799999999999999987653

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

Probab=94.10  E-value=0.021  Score=45.52  Aligned_cols=20  Identities=50%  Similarity=1.213  Sum_probs=14.2

Q ss_pred             CCceeccCCCCCCCCCCCCc
Q 013677          146 ASRCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~P  165 (438)
                      ...|||||..+|..++||.+
T Consensus        24 ~~~C~~Cg~~GH~a~~C~~~   43 (74)
T 2li8_A           24 GDRCYNCGGLDHHAKECKLP   43 (74)
T ss_dssp             TSCCTTTCCSSSCTTTCSSC
T ss_pred             CCcccccCCcCcCcccCCCC
Confidence            35677777777777777754

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

Probab=94.09  E-value=0.016  Score=47.23  Aligned_cols=22  Identities=32%  Similarity=0.800  Sum_probs=20.1

Q ss_pred             CCCceeccCCCCCCCCCCCCcc
Q 013677          145 DASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ....|+|||..+|.-+|||++|
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            3578999999999999999887

>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=93.77  E-value=0.022  Score=42.24  Aligned_cols=21  Identities=29%  Similarity=0.933  Sum_probs=18.9

Q ss_pred             CCceeccCCCCCCCCCCCCcc
Q 013677          146 ASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ...||+||..+|..++||..+
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            468999999999999999765

>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=93.22  E-value=0.031  Score=40.87  Aligned_cols=21  Identities=29%  Similarity=0.963  Sum_probs=18.5

Q ss_pred             CCceeccCCCCCCCCCCCCcc
Q 013677          146 ASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ...||+||..+|..++||...
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            468999999999999999754

>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=93.04  E-value=0.031  Score=49.57  Aligned_cols=22  Identities=45%  Similarity=1.103  Sum_probs=17.1

Q ss_pred             CCceeccCCCCCCCCCCCCccC
Q 013677          146 ASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      ..+|||||..+|..++||.|..
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            3578888888888888887543

>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=92.91  E-value=0.037  Score=42.50  Aligned_cols=21  Identities=33%  Similarity=0.755  Sum_probs=18.5

Q ss_pred             CCceeccCCCCCCCCCCCCcc
Q 013677          146 ASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ...|||||..+|..++||...
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            578999999999999999543

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

Probab=92.11  E-value=0.044  Score=37.77  Aligned_cols=18  Identities=33%  Similarity=0.778  Sum_probs=16.7

Q ss_pred             CceeccCCCCCCCCCCCC
Q 013677          147 SRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~  164 (438)
                      ..||+||..+|..++||.
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            689999999999999983

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

Probab=90.91  E-value=0.077  Score=42.31  Aligned_cols=21  Identities=33%  Similarity=0.755  Sum_probs=18.4

Q ss_pred             CCceeccCCCCCCCCCCCCcc
Q 013677          146 ASRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PR  166 (438)
                      ...||+||..+|..++||...
T Consensus        46 ~~~C~~Cg~~GH~ar~Cp~~~   66 (74)
T 2li8_A           46 PKKCHFCQSISHMVASCPLKA   66 (74)
T ss_dssp             CCCCTTTCCTTSCGGGCTTGG
T ss_pred             CCccCCcCCcCCccCcCcCCc
Confidence            478999999999999999543

>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=90.38  E-value=0.095  Score=46.41  Aligned_cols=23  Identities=26%  Similarity=0.706  Sum_probs=19.0

Q ss_pred             CCceeccCCCCCCCCCCCCccCH
Q 013677          146 ASRCFNCGSYSHSLKECPKPRDK  168 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~PRd~  168 (438)
                      ...||+||..+|..++||...-.
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            46899999999999999965443

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

Probab=89.07  E-value=0.096  Score=42.69  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=17.0

Q ss_pred             CCCceeccCCCCCCCCCCCCc
Q 013677          145 DASRCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~P  165 (438)
                      +...||||++.+|..++||..
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            457899999999999999965

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

Probab=87.11  E-value=0.25  Score=41.74  Aligned_cols=20  Identities=30%  Similarity=0.811  Sum_probs=18.2

Q ss_pred             CCCceeccCCCCCCCCCCCC
Q 013677          145 DASRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~  164 (438)
                      ....|||||+.+|..+|||+
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            35799999999999999996

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

Probab=85.97  E-value=0.3  Score=41.18  Aligned_cols=18  Identities=39%  Similarity=0.988  Sum_probs=12.7

Q ss_pred             CceeccCCCCCCCCCCCC
Q 013677          147 SRCFNCGSYSHSLKECPK  164 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~  164 (438)
                      ..||||+..+|..++||.
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            457777777777777775

---

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	438
d2exfa1	42	g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod	4e-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 = 38.7 bits (90), Expect = 4e-05
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 148 RCFNCGSYSHSLKECPKPRDK 168
           +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	438
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	97.22
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	96.9
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	93.25
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	90.85

>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=97.22  E-value=4.7e-05  Score=50.05  Aligned_cols=23  Identities=43%  Similarity=1.041  Sum_probs=20.4

Q ss_pred             CCCceeccCCCCCCCCCCCCccC
Q 013677          145 DASRCFNCGSYSHSLKECPKPRD  167 (438)
Q Consensus       145 ~~~~CFNCG~~~HsLrdCP~PRd  167 (438)
                      +...|||||-++|..++|--||-
T Consensus         5 ~~ikCfNCGkeGH~ar~CrAPRk   27 (29)
T d1nc8a_           5 KVIRCWNCGKEGHSARQCRAPRR   27 (29)
T ss_dssp             CCCBCTTTSCBSSCGGGCCSSSS
T ss_pred             ceeEeecCCccchhhhhccCccc
Confidence            35789999999999999999874

>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=96.90  E-value=0.00017  Score=50.53  Aligned_cols=20  Identities=45%  Similarity=1.203  Sum_probs=14.6

Q ss_pred             CceeccCCCCCCCCCCCCcc
Q 013677          147 SRCFNCGSYSHSLKECPKPR  166 (438)
Q Consensus       147 ~~CFNCG~~~HsLrdCP~PR  166 (438)
                      .+|||||..+|..+|||.|+
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            46777777777777777764

>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=93.25  E-value=0.018  Score=39.81  Aligned_cols=20  Identities=30%  Similarity=0.954  Sum_probs=17.7

Q ss_pred             CCceeccCCCCCCCCCCCCc
Q 013677          146 ASRCFNCGSYSHSLKECPKP  165 (438)
Q Consensus       146 ~~~CFNCG~~~HsLrdCP~P  165 (438)
                      ...||+||..+|..++||+.
T Consensus        22 ~~~C~~Cg~~GH~~~~Cp~r   41 (42)
T d2exfa1          22 KKGCWKCGKEGHQMKDCTER   41 (42)
T ss_dssp             CSSCSSSCCSSSCTTTCCSS
T ss_pred             cCccccCCCCCeecccCCCC
Confidence            35799999999999999963