Citrus Sinensis ID: 014840

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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-------
Protein Sequence
MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Secondary Structure (PSIPRED)
ccccccccEEEEEHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccccccEEEccEEEcccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccEEEcccccccccccccccccHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccEEEEcccccccccccccHHccccccccccEEcccccccccccccccHHccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccEEEEEEccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHccccccEccEEEEcccccccEEEEEEcccccccccccEccccccccccccEEEEccccccccccccccEEEEccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccccccEEEccccHHHccccccccccHHHHHHHccccccccHHHHHHHHcccccccccHHHHHccccEEEEccccccccccccccccccccccccHHEEccccccccccccccHHHccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mtldeeqpsvHVIYNSLTRASKQKLEELLQQWSEWQaqfgsssndpnegiefgeqtffpairvgkakgpavsFWIDnqtrnqqnknfipsdshgtplydrgyalgltsgdgssnleggleiiddasrcfncgsyshslkecpkprdkdavNNARKQHkskrnqnsasrnpmryyqnsaggkydglrpgaldAETRQLlglgeldpppwlhrmrelgyppgyldsedddqpsgitiyadgeikegqedgeiietgrpaskrkmttefpginapipenaderlwaarpsssdssrdrshhrlnhhsesisrgryheqrwsrdyrddgppgvdpvssyppryggydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldryrddYSREYLSRsmdeydrfrprgrww
Flexible Loop (DISEMBL)
mtldeeqpsvhVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQtrnqqnknfipsdshgtpLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSyshslkecpkprdkdavnnarkqhkskrnqnsasrnpmRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADgeikegqedgeiietgrpaskrkmttefpginapipenadeRLWAARPSssdssrdrshhrlnhhsesisrgryhEQRWSrdyrddgppgvDPVSSYPPRYGGydyysshsrsptrgrsysdrdrddyashgsysspysnrhtsppdydldrYRDDYSReylsrsmdeydrfrprgrww
Low Complexity Region (SEG)
MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAArpsssdssrdrshhrlnhhsESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTrgrsysdrdrddyASHGSYSSPYSNRHTsppdydldryrddysreylsrsMDEYDRFRPRGRWW
Disordered region (IsUnstruct)
***********VIYNSL**********LLQQWSEW**************IEFGEQTFFPAIRVGKAKGPAVSFWIDN******************PLYDRGYALGLT*******LEGGLEIIDDASRCFNCGSY*************************************************************QLLGLGELDPPPWLHRMRELGY********************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
***DEEQPSVHVIYNSLTRASKQKLEELLQQ******************************RVGKAKGPAVSFWIDNQTRNQQ*KNF*PS*SHGTPLYDRGY***********************SRCFNCGSYSHSLKECPKPRDKDAVNNARK*********************SAGGKYDGLRPG*LDA**RQ*LGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGIT***************************MTTEFPGINAPIPENADERLWAA*************************************************************************************************************************************
Disordered Region (DISEMBL)
********SVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHS*****************************SRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW********************************QRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYS****************RDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
Disordered Region (DISPRO)
MT**EEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGS***DPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG***************RPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHH*********************GPPGVDPVSSYPPRYGGYDYYSSH******************************RHTSPPDYDLDR***************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYSSPYSNRHTSPPDYDLDRYRDDYSREYLSRSMDEYDRFRPRGRWW
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	417	2.2.26 [Sep-21-2011]
Q6DD45	743	Zinc finger CCHC domain-c	N/A	no	0.369	0.207	0.349	1e-19
Q9CYA6	709	Zinc finger CCHC domain-c	yes	no	0.414	0.244	0.322	9e-19
Q5F3D1	613	Zinc finger CCHC domain-c	yes	no	0.429	0.292	0.309	3e-18
Q6NZY4	707	Zinc finger CCHC domain-c	yes	no	0.412	0.243	0.308	2e-17
Q5R789	704	Zinc finger CCHC domain-c	yes	no	0.422	0.25	0.304	3e-17
Q2PE14	553	Zinc finger CCHC domain-c	yes	no	0.316	0.238	0.348	4e-14
P34656	453	Uncharacterized protein Z	no	no	0.203	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: 118 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 173
           G EI   A R    CFNCGS  H +++CPKPRD+  +N  RK+      + + ++N  RY
Sbjct: 201 GQEIQVKAKRPKPCCFNCGSEEHQMRDCPKPRDQAHINMKRKEFLDACGE-AGNQNQQRY 259

Query: 174 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 233
           +      ++   +PG +  E ++ LG+ + + PP+++RMRELGYPPG+L  E + + SG+
Sbjct: 260 HAEEVEERFGKYKPGVISEELQEALGIMDKNLPPFIYRMRELGYPPGWL-KEAELENSGL 318

Query: 234 TIYADGEIKEGQEDGEIIETGRPASKR-----KMTTEFPGINAPIP 274
           ++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 = 95.1 bits (235), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 60/186 (32%), Positives = 93/186 (50%), Gaps = 13/186 (6%)

Query: 128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 187
           CFNCGS  H +KECP PR+   ++  RK++     + S      RY+      ++   +P
Sbjct: 232 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEASGQSFQQRYHAEEVEERFGRFKP 291

Query: 188 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-----ADGEIK 242
           G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y     ADGE  
Sbjct: 292 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALYDGNDDADGET- 349

Query: 243 EGQEDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL 300
              E GEI          K+   +PG N   P    DE R++ + P  +   +D     L
Sbjct: 350 ---ETGEIQNKNVTYDLSKLVN-YPGFNISTPRGIPDEWRMFGSIPMQACQQKDVFASYL 405

Query: 301 NHHSES 306
           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 = 93.6 bits (231), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 57/184 (30%), Positives = 90/184 (48%), Gaps = 5/184 (2%)

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

Query: 186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ 245
           +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+     
Sbjct: 186 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKDDNET 243

Query: 246 EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSDSSRDRSHHRL-NH 302
           ED   ++             +PG N   P    DE +++ + P      +D   H L N 
Sbjct: 244 EDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDEWQIFGSIPMQPSQQKDVFAHYLSNF 303

Query: 303 HSES 306
           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 = 58/188 (30%), Positives = 91/188 (48%), Gaps = 16/188 (8%)

Query: 118 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 173
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 215 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 274

Query: 174 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 233
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 275 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 333

Query: 234 TIY-----ADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARP 286
            +Y      DGE     E GEI +             +PG N   P    DE R++ + P
Sbjct: 334 ALYDGKDGTDGET----EVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIP 389

Query: 287 SSSDSSRD 294
             +   +D
Sbjct: 390 MQACQQKD 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: 118 GLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRY 173
           G EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +      RY
Sbjct: 213 GQEIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNFQQRY 272

Query: 174 YQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGI 233
           +      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+
Sbjct: 273 HAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGL 331

Query: 234 TIYADGEIKEGQ-EDGEIIETGRPASKRKMTTEFPGINAPIPENA-DE-RLWAARPSSSD 290
            +Y   +  +G+ E GEI +             +PG N   P    DE R++ + P  + 
Sbjct: 332 ALYDGKDGTDGETEVGEIQQNKSVTYDLSKLVNYPGFNISTPRGIPDEWRIFGSIPMQAC 391

Query: 291 SSRD 294
             +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 = 79.7 bits (195), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 52/149 (34%), Positives = 76/149 (51%), Gaps = 17/149 (11%)

Query: 126 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 185
           S CFNCG   HSL++C KPR+   +  ARK+  S+           RY+ ++   ++  +
Sbjct: 183 SSCFNCGDTEHSLRDCTKPRNNSRITRARKKMTSRTE---------RYHVDTE-QRFGHI 232

Query: 186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIY-ADGE--IK 242
           RPG +  +TR  +G      P   +RMR LGYPP +L+ E   Q SGI ++ ADG    K
Sbjct: 233 RPGKISTKTRHAMGYSRGQLPFIFYRMRVLGYPPAWLE-EAKVQSSGIALFNADGSEVTK 291

Query: 243 EGQEDGEIIETGRPASKRKMTTEFPGINA 271
             +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 = 45.4 bits (106), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 17/102 (16%)

Query: 128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG---GKYDG 184
           CFNC    H+L++C + +D   ++  +++    R          R + N  G    +   
Sbjct: 111 CFNCDG-EHNLRDCTQRKDFRRISRKKRESGDGRQ---------RVFYNDVGISKQREKH 160

Query: 185 LRPGALDAETRQLLGLGELDPPPWLHRMREL----GYPPGYL 222
            +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	417
255570019	693	nucleic acid binding protein, putative [	0.983	0.591	0.637	1e-145
359488397	575	PREDICTED: uncharacterized protein LOC10	0.844	0.612	0.677	1e-137
224079886	531	predicted protein [Populus trichocarpa]	0.808	0.634	0.693	1e-136
449525630	610	PREDICTED: uncharacterized protein LOC10	0.858	0.586	0.655	1e-131
307136480	610	nucleic acid binding protein [Cucumis me	0.858	0.586	0.655	1e-131
449447474	610	PREDICTED: uncharacterized protein LOC10	0.858	0.586	0.655	1e-131
356573637	660	PREDICTED: uncharacterized protein LOC10	0.961	0.607	0.596	1e-130
298204384	1165	unnamed protein product [Vitis vinifera]	0.791	0.283	0.637	1e-125
224127396	289	predicted protein [Populus trichocarpa]	0.673	0.972	0.726	1e-119
358346605	543	Zinc finger CCHC domain-containing prote	0.793	0.609	0.650	1e-114

>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 =  522 bits (1344), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 274/430 (63%), Positives = 328/430 (76%), Gaps = 20/430 (4%)

Query: 1   MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
           +  +E+QPSVHV YNSLTRASK+KLEELLQQWSEW  Q GSSS D NE +E GE+T+FPA
Sbjct: 253 IAYNEQQPSVHVTYNSLTRASKRKLEELLQQWSEWHVQRGSSSQDLNEVLESGEETYFPA 312

Query: 61  IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
           + VG  K  AVSFWI+NQT+ Q N + I SDS   PLYDRG+A+GLTS DG SN+EGGLE
Sbjct: 313 LCVGTEKSSAVSFWIENQTKKQLNNDLISSDSDSVPLYDRGFAIGLTSTDGPSNVEGGLE 372

Query: 121 IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
           I+++A+RCFNCGSYSH+LKECPKPR+  AVNNARKQHKSKRNQN+ SRN  RYYQ+S+GG
Sbjct: 373 IVNEAARCFNCGSYSHALKECPKPRNNAAVNNARKQHKSKRNQNAGSRNGTRYYQSSSGG 432

Query: 181 KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
           KY+GL+PG+LDAETR+LLGLGELDPPPWL+RMRELGYPPGYLD +D+DQPSGI I+ADG+
Sbjct: 433 KYEGLKPGSLDAETRRLLGLGELDPPPWLNRMRELGYPPGYLDPDDEDQPSGIIIFADGD 492

Query: 241 IKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRL 300
           IK+ QEDGEIIET  P   RKM  EFPGINAPIPENADERLW   PSS +S R+R   + 
Sbjct: 493 IKDEQEDGEIIETENPDPPRKMAVEFPGINAPIPENADERLWETGPSSYNSFRNRPFRKS 552

Query: 301 NHHSESISRGRYHEQRWSRDYRDDGPPGVDPV---SSYPPRYGGYDYYSSHSR----SPT 353
           +H SE+ISR  +HEQR SRD  D+GPPGVDPV   SS+PPRYG YD   S       + +
Sbjct: 553 DHSSETISRWHHHEQRGSRDSIDEGPPGVDPVFSPSSFPPRYGNYDSSYSSDSLRGSTAS 612

Query: 354 RGRSYSDRDR------DDYASHGSYSSPYSNRHTSPPDYDLDRY------RDDYSR-EYL 400
             RS S++ R      +D+ASH S      N+ +SP D D DR       R +YSR +Y 
Sbjct: 613 LPRSRSEKGRRSPVVYEDFASHSSSPFSSLNKRSSPKDNDSDRLESETDERWNYSRLDYS 672

Query: 401 SRSMDEYDRF 410
            RS+DE+DR+
Sbjct: 673 YRSIDEHDRY 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 =  493 bits (1268), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 254/375 (67%), Positives = 288/375 (76%), Gaps = 23/375 (6%)

Query: 1   MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
           +T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ SSS+DP   ++ GE+T+FPA
Sbjct: 140 LTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVSSSHDPKGQLDSGEKTYFPA 199

Query: 61  IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
           + VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG+ALGL S DG S  EG LE
Sbjct: 200 LHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRGFALGLVSEDGQSKPEGALE 259

Query: 121 IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
           IID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+RNQN  SRNP RYYQNS GG
Sbjct: 260 IID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRRNQNPGSRNPTRYYQNSPGG 318

Query: 181 KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
           +YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGYLD E+++QPSGITIYAD E
Sbjct: 319 RYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGYLDPEEEEQPSGITIYADEE 378

Query: 241 IKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRL 300
           +K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER WAA          R H RL
Sbjct: 379 VKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERRWAA--------GSRPHRRL 430

Query: 301 NHHSESISRGRYHEQRWSRDYRDDGPPGVD-----PVSSYPPRYGGYD-YYSSHS----- 349
           NH  E  SR   HEQRWSRDYRDDGP   D     P SSYPPR+GG D  Y+S+S     
Sbjct: 431 NHSYEPSSRRNSHEQRWSRDYRDDGPCDSDMEISPPRSSYPPRHGGIDSSYTSYSTRGNI 490

Query: 350 ---RSPTRGRSYSDR 361
              RSP  GRS SDR
Sbjct: 491 PRPRSPNFGRSLSDR 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 =  490 bits (1261), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 240/346 (69%), Positives = 281/346 (81%), Gaps = 9/346 (2%)

Query: 1   MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
           +T +EEQPSVHV+YNSLTRASK+KLEELLQQWSEW AQ  SSS+D +E ++ GE T+FPA
Sbjct: 127 ITYNEEQPSVHVMYNSLTRASKKKLEELLQQWSEWHAQQNSSSHDSDEMLQSGEDTYFPA 186

Query: 61  IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
           +R+G  K  AV+FWI+NQTR QQ+   IP  S+  PLYDRGYALGLTS DG  N+E GLE
Sbjct: 187 LRIGMVKSSAVTFWIENQTRKQQDNAIIPLQSNYVPLYDRGYALGLTSADGPINIERGLE 246

Query: 121 IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
           I+ DA+RC+NC SY+HSLKECPKPRD  AVNNARKQHK KRNQNS+SRNP RYYQ+S+GG
Sbjct: 247 IVGDAARCYNCASYNHSLKECPKPRDNAAVNNARKQHKFKRNQNSSSRNPTRYYQSSSGG 306

Query: 181 KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
           KYDGL+PG+LD ET++LLGLGELDPPPWL+RM+ELGYPPGYLD +D+DQPSGITI+ADG+
Sbjct: 307 KYDGLKPGSLDTETQKLLGLGELDPPPWLNRMQELGYPPGYLDPDDEDQPSGITIFADGD 366

Query: 241 IKEGQEDGEIIETGRPAS-KRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHR 299
           + E QEDGEI ET  P   +RKM+ EFPGINA IPENAD+RLW   P+SSD  R RS HR
Sbjct: 367 VNEEQEDGEITETDPPPEPQRKMSVEFPGINAAIPENADQRLWEVGPTSSDPWRHRSQHR 426

Query: 300 LNHHSESISRGRYHEQRWSRDYRDDGPPGVDPV-----SSYPPRYG 340
           L + SE+  R  +HEQ   R YRDDGPPGVD V     SSYPPRYG
Sbjct: 427 LKYSSEATGRWHHHEQ---RQYRDDGPPGVDSVFSPSMSSYPPRYG 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 =  476 bits (1224), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 247/377 (65%), Positives = 289/377 (76%), Gaps = 19/377 (5%)

Query: 2   TLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NEGIEFGEQTFFP 59
            +DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E +E GE+TFFP
Sbjct: 211 AMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSCDDKDTENLESGEETFFP 270

Query: 60  AIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGL 119
           A+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLYDRG+ LGLTS + SSN+EGG 
Sbjct: 271 ALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLYDRGFTLGLTSANDSSNVEGGQ 329

Query: 120 EIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG 179
           +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASRN  RYYQNS G
Sbjct: 330 KIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASRNSTRYYQNSRG 387

Query: 180 GKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG 239
           GKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+DQPSGITIYAD 
Sbjct: 388 GKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDEDQPSGITIYADE 447

Query: 240 EIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHR 299
           +  E QEDGEI E      ++K + EFPGINAPIPENADERLWA  PS+S  SR+RS+ R
Sbjct: 448 KTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENADERLWAPEPSNSGLSRNRSNQR 506

Query: 300 LNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY-YSSH------ 348
           LNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+ Y S       
Sbjct: 507 LNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDFSYDSQTPRGSF 566

Query: 349 --SRSPTRGRSYSDRDR 363
             SRSP  GR +SDR R
Sbjct: 567 STSRSPNLGRPHSDRGR 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 =  475 bits (1223), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 247/377 (65%), Positives = 288/377 (76%), Gaps = 19/377 (5%)

Query: 2   TLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NEGIEFGEQTFFP 59
            +DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E +E GE+TFFP
Sbjct: 211 AMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSRDDKDTENLESGEETFFP 270

Query: 60  AIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGL 119
           A+ VG  K  AV+FW+DNQ +++Q + F+P D +  PLYDRG+ LGLTS + SSN+EGG 
Sbjct: 271 ALCVGTKKTSAVTFWMDNQ-KSEQQQTFVPIDDNSVPLYDRGFTLGLTSANDSSNVEGGQ 329

Query: 120 EIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG 179
           +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASRN  RYYQNS G
Sbjct: 330 KIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASRNSTRYYQNSRG 387

Query: 180 GKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG 239
           GKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+DQPSGITIYAD 
Sbjct: 388 GKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDEDQPSGITIYADE 447

Query: 240 EIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHR 299
           +  E QEDGEI E      ++KM+ EFPGINAPIPENADERLWA  PSSS   R+RS+ R
Sbjct: 448 KTDE-QEDGEITEAEYRKPQKKMSVEFPGINAPIPENADERLWAPEPSSSGLPRNRSNQR 506

Query: 300 LNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY-YSSH------ 348
           LNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+ Y S       
Sbjct: 507 LNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDFSYDSQTPRGSF 566

Query: 349 --SRSPTRGRSYSDRDR 363
             SRSP  GR +SDR R
Sbjct: 567 STSRSPNLGRPHSDRGR 583

Source: Cucumis melo subsp. melo

Species: Cucumis melo

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  475 bits (1223), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 247/377 (65%), Positives = 288/377 (76%), Gaps = 19/377 (5%)

Query: 2   TLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDP--NEGIEFGEQTFFP 59
            +DE+QPSVH++Y SLTR SKQKL+ELL+QWSEW AQ GS S D    E +E GE+TFFP
Sbjct: 211 AMDEQQPSVHIVYTSLTRDSKQKLDELLKQWSEWHAQQGSLSCDDKDTENLESGEETFFP 270

Query: 60  AIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGL 119
           A+ VG  K  AV+FW+DNQ +++Q +NF+P D +  PLYDRG+ LGLTS + SSN EGG 
Sbjct: 271 ALCVGTKKTSAVTFWMDNQ-KSEQQQNFVPIDDNSVPLYDRGFTLGLTSANDSSNAEGGQ 329

Query: 120 EIIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAG 179
           +IIDDASRCFNCGSY+HSLK+C KPRD  AVNNAR  +K K+  NSASRN  RYYQNS G
Sbjct: 330 KIIDDASRCFNCGSYNHSLKDCRKPRDNAAVNNAR--NKYKKQHNSASRNSTRYYQNSRG 387

Query: 180 GKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG 239
           GKYD LRPG LDAETRQLLGL ELDPPPWL+RMRELGYPPGYLD ED+DQPSGITIYAD 
Sbjct: 388 GKYDDLRPGTLDAETRQLLGLKELDPPPWLNRMRELGYPPGYLDPEDEDQPSGITIYADE 447

Query: 240 EIKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHR 299
           +  E QEDGEI E      ++K + EFPGINAPIPENADERLWA  PS+S  SR+RS+ R
Sbjct: 448 KTDE-QEDGEITEAEYRKPRKKKSVEFPGINAPIPENADERLWAPEPSNSGLSRNRSNQR 506

Query: 300 LNHHSESISRGR-YHEQRWSRDYRDDGPPGVDPVSSYP---PRYGGYDY-YSSH------ 348
           LNH+ E  +RG  +H+QRWSRDYRDD PPGVD + S P   PRYGG+D+ Y S       
Sbjct: 507 LNHYPEYDTRGNDHHQQRWSRDYRDDRPPGVDSIKSPPSFTPRYGGHDFSYDSQTPRGSF 566

Query: 349 --SRSPTRGRSYSDRDR 363
             SRSP  GR +SDR R
Sbjct: 567 STSRSPNLGRPHSDRGR 583

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  472 bits (1215), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 259/434 (59%), Positives = 309/434 (71%), Gaps = 33/434 (7%)

Query: 1   MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
           +T+DE QPSVH  YNSLTRAS+QKL+ELLQ+WS W A+  SSS+D +E +E GE+TFFPA
Sbjct: 226 ITVDEYQPSVHFTYNSLTRASRQKLQELLQKWSAWHAKHVSSSSDASEVLESGEETFFPA 285

Query: 61  IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
           + VG  K  AVSFW++NQTRN +NK+FIP   +  PLYDRGYALGLTS DGSSN++GGLE
Sbjct: 286 LHVGLEKTSAVSFWMENQTRNDKNKDFIPLADNTVPLYDRGYALGLTSADGSSNVDGGLE 345

Query: 121 IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
           IID A+RCFNCGSY+HSL+ECP+PRD  AVNNAR + KS+RNQNS+SR+P RYYQNS  G
Sbjct: 346 IIDAAARCFNCGSYNHSLRECPRPRDNIAVNNARDKLKSRRNQNSSSRHPTRYYQNSPAG 405

Query: 181 KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
           KYDGLRPG+LD  TR+LLGL ELDPPPWL+RMRELGYPPGYLD +++DQPSGITI+ D E
Sbjct: 406 KYDGLRPGSLDDATRKLLGLRELDPPPWLNRMRELGYPPGYLDVDNEDQPSGITIFTDSE 465

Query: 241 IKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAAR--PSSSDSSRDRS-- 296
           I + QEDGEI+E      KRK T +FPGINAPIPE ADERLW  R  PSSSD SR+ S  
Sbjct: 466 IAD-QEDGEIMEANASKPKRKKTVKFPGINAPIPEKADERLWGTRAGPSSSDISRNLSLP 524

Query: 297 HHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDP-----VSSYPPRYGGYDYYSSHSRS 351
            HR N+ ++  SRG + E R   D RD+GPPG DP     + S+ PR+GG+D   S  RS
Sbjct: 525 QHRSNYSTDYGSRGYHREHRLG-DLRDEGPPG-DPGHSSFMFSFHPRFGGHD---SALRS 579

Query: 352 PTRGRSYSDRDRDDYASHGSYSSPY---------SNRHTSPPDYDLDRYRD--------D 394
           P+  RS SDR R       S S P+         S RH SP D D  R           D
Sbjct: 580 PSMARSQSDRSRSPMHDEES-SMPFSFHSLHYSSSERHFSPLDRDSGRLGSWTSESMYYD 638

Query: 395 YSREYLSRSMDEYD 408
             R + SR MD +D
Sbjct: 639 RDRVFSSRFMDRFD 652

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 236/370 (63%), Positives = 270/370 (72%), Gaps = 40/370 (10%)

Query: 1    MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
            +T+DE+QPSVHVIYNSLTR SK+KLEELLQQWSEW A++ SSS+DP   ++ GE+T+FPA
Sbjct: 730  LTIDEQQPSVHVIYNSLTRDSKRKLEELLQQWSEWHAKYVSSSHDPKGQLDSGEKTYFPA 789

Query: 61   IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
            + VG  K  AVSFW+DNQTR QQ+K FI  D    PLYDRG+ALGL S DG S  EG LE
Sbjct: 790  LHVGLNKSSAVSFWVDNQTRKQQDKEFISLDGDSVPLYDRGFALGLVSEDGQSKPEGALE 849

Query: 121  IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
            IID ASRCFNCGSY+HS+KECPKPRD  AVNNARKQHKS+RNQN  SRNP RYYQNS GG
Sbjct: 850  IID-ASRCFNCGSYNHSMKECPKPRDNVAVNNARKQHKSRRNQNPGSRNPTRYYQNSPGG 908

Query: 181  KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
            +YDGLRPGAL  ETR+LLGLGELDPPPWL+RMRE+GYPPGYLD E+++QPSGITIYAD E
Sbjct: 909  RYDGLRPGALGVETRELLGLGELDPPPWLNRMREMGYPPGYLDPEEEEQPSGITIYADEE 968

Query: 241  IKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSDSSRDRSHHRL 300
            +K+ QEDGEI+ET     +RKM+ EFPGINAPIP+NADER WAA          R H RL
Sbjct: 969  VKDEQEDGEILETEYLEPQRKMSVEFPGINAPIPKNADERRWAA--------GSRPHRRL 1020

Query: 301  NHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGGYD-YYSSHS--------RS 351
            NH  E  SR   HEQ                      R+GG D  Y+S+S        RS
Sbjct: 1021 NHSYEPSSRRNSHEQ----------------------RHGGIDSSYTSYSTRGNIPRPRS 1058

Query: 352  PTRGRSYSDR 361
            P  GRS SDR
Sbjct: 1059 PNFGRSLSDR 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 =  435 bits (1119), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 205/282 (72%), Positives = 239/282 (84%), Gaps = 1/282 (0%)

Query: 1   MTLDEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPA 60
           M  DE+QPSVHV+YNSLTR+ KQKLEELLQQWSEW AQ  +SS+D NE ++ GE T+FPA
Sbjct: 8   MAYDEQQPSVHVMYNSLTRSGKQKLEELLQQWSEWHAQ-QNSSHDSNEMLQSGEDTYFPA 66

Query: 61  IRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLE 120
           +RVG  K  AVSFWI+NQ R QQ+ + I   S+  PLYDRGY LGLTS DG  N+EGGLE
Sbjct: 67  LRVGMEKSSAVSFWIENQARKQQDNDLILQHSNFVPLYDRGYVLGLTSADGPINVEGGLE 126

Query: 121 IIDDASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGG 180
           I+D A+RCFNCG+Y+HSLKECPKPRD  AVNNARKQHK KRNQNS+SRNP RYYQ+S+GG
Sbjct: 127 IVDAAARCFNCGAYNHSLKECPKPRDNAAVNNARKQHKFKRNQNSSSRNPTRYYQSSSGG 186

Query: 181 KYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE 240
           KYDGL+PG+LD ETRQLLGLGELDPPPWL+RMRELGYPPGYLD +D+DQPSGITI+ DG+
Sbjct: 187 KYDGLKPGSLDTETRQLLGLGELDPPPWLNRMRELGYPPGYLDPDDEDQPSGITIFDDGD 246

Query: 241 IKEGQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 282
           ++E QEDGEI+ET  P   RKM+ EFPGINAPIPENA++R W
Sbjct: 247 VEEEQEDGEIMETDHPEPPRKMSVEFPGINAPIPENANQRFW 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 =  417 bits (1071), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 225/346 (65%), Positives = 265/346 (76%), Gaps = 15/346 (4%)

Query: 4   DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRV 63
           D+ QPSVH  Y SLTRASK KL+ELLQQWS+W A+  SSSNDP+E +E GE+TFFPAI V
Sbjct: 110 DDHQPSVHFSYKSLTRASKNKLQELLQQWSQWHAKNVSSSNDPSEVLESGEETFFPAICV 169

Query: 64  GKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIID 123
           G     +VSFW++NQ+ N +NK+  P D +  PLYDRGYALGLTS DGS+N + GL+IID
Sbjct: 170 GHESKSSVSFWMENQSMNDRNKDVSPIDGNSVPLYDRGYALGLTSADGSNNADDGLKIID 229

Query: 124 DASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYD 183
             SRCFNCGSYSH+L+ECP+PRD  AVNNARKQ KS+RNQ+S+SRNP RYYQ+S+ GKY 
Sbjct: 230 APSRCFNCGSYSHALRECPRPRDNVAVNNARKQLKSQRNQSSSSRNPTRYYQDSSAGKYA 289

Query: 184 GLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKE 243
           GLRPGALD  TRQLLGLGELDPPPWL+RMRELGYPPGYLD +++DQPSGITI+ D ++ E
Sbjct: 290 GLRPGALDDATRQLLGLGELDPPPWLNRMRELGYPPGYLDEDEEDQPSGITIFTDKDMAE 349

Query: 244 GQEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAAR----PSSSDSSRDRSHHR 299
            QEDGEII       KRKM+ EFPG+NAPIPENADERLWAAR    P + D SR+ S  R
Sbjct: 350 -QEDGEIIGADSSKPKRKMSVEFPGLNAPIPENADERLWAARAVVSPIAIDISRNWSQQR 408

Query: 300 LNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVS-----SYPPRYG 340
               S   SRG  H+QR   D RDDGPPG DP+      S+ PR+G
Sbjct: 409 ---SSSFGSRGHQHDQRIG-DLRDDGPPG-DPMHNSSHFSFQPRFG 449

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	417
TAIR|locus:2159818	532	AT5G38600 [Arabidopsis thalian	0.796	0.624	0.594	1.8e-103
TAIR|locus:2809302	405	AT1G67210 [Arabidopsis thalian	0.661	0.681	0.619	4.2e-96
UNIPROTKB|E2QXB5	709	ZCCHC8 "Uncharacterized protei	0.386	0.227	0.335	2.4e-19
UNIPROTKB|Q5F3D1	613	ZCCHC8 "Zinc finger CCHC domai	0.369	0.251	0.312	4.7e-19
MGI|MGI:1917900	709	Zcchc8 "zinc finger, CCHC doma	0.364	0.214	0.320	6.1e-19
RGD|1309774	695	Zcchc8 "zinc finger, CCHC doma	0.364	0.218	0.314	7.8e-19
UNIPROTKB|F1MM78	710	ZCCHC8 "Uncharacterized protei	0.354	0.208	0.322	3.6e-18
UNIPROTKB|F1NEG3	684	F1NEG3 "Uncharacterized protei	0.369	0.225	0.314	5.9e-18
UNIPROTKB|Q6NZY4	707	ZCCHC8 "Zinc finger CCHC domai	0.386	0.227	0.329	6.3e-18
ZFIN|ZDB-GENE-060526-6	694	zcchc8 "zinc finger, CCHC doma	0.328	0.197	0.355	3.4e-17

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

 Score = 1025 (365.9 bits), Expect = 1.8e-103, P = 1.8e-103
 Identities = 217/365 (59%), Positives = 253/365 (69%)

Query:     4 DEEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRV 63
             DE+QP+VHV Y  LTRASKQKLE LLQ+WSEW+A+  S + D  +  E GE+T FPAIRV
Sbjct:   118 DEQQPTVHVTYKHLTRASKQKLESLLQKWSEWEAENTSLAQDQEQLFESGEETCFPAIRV 177

Query:    64 GKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIID 123
             G  K  +VSFWIDNQT ++  ++F+  +S  TPLYDR +A+GL S DGS N+EGGLEIID
Sbjct:   178 GLQKTSSVSFWIDNQTGHKPLEDFVLVESSTTPLYDRKFAIGLNSADGSRNVEGGLEIID 237

Query:   124 D-ASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSAS-RNPMRYYQNSAGGK 181
             D   RCFNCG YSHSL+ECP+P D+ AVN+ARK  KSKRNQNS+  R P RYYQ +  GK
Sbjct:   238 DDPPRCFNCGGYSHSLRECPRPFDRSAVNSARKLQKSKRNQNSSGPRLPSRYYQKTQTGK 297

Query:   182 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADG-E 240
             YDGL+PG LDAETRQLL LGELDPPPWL+RMRE+GYPPGYL  EDD   SGITI+ +  E
Sbjct:   298 YDGLKPGTLDAETRQLLNLGELDPPPWLNRMREIGYPPGYLAPEDDHL-SGITIFGEEVE 356

Query:   241 IKEG--QEDGEIIETGR--PASKRKMTTEFPGINAPIPENADERLWAAXXXXXXXXXXXX 296
              +E    EDGEI+E     P  + K T EFPGINAP PENADE LW A            
Sbjct:   357 TREEIESEDGEILEKANHPPEPQMKKTVEFPGINAPFPENADEWLWEAAPSHR------- 409

Query:   297 XXXXXXXXESISRGRYHEQRWSR--DYRDDGPPGVDPVSSYPPRYGG-YDY------YSS 347
                      S   GR+ +Q+ SR  DYRDDGP GV+P SSYPPRYG  YDY      Y S
Sbjct:   410 --------NSSRSGRWQQQKTSRGHDYRDDGPLGVEP-SSYPPRYGSRYDYGYGSNEYGS 460

Query:   348 HSRSP 352
              SRSP
Sbjct:   461 RSRSP 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 = 923 (330.0 bits), Expect = 4.2e-96, Sum P(2) = 4.2e-96
 Identities = 176/284 (61%), Positives = 213/284 (75%)

Query:     5 EEQPSVHVIYNSLTRASKQKLEELLQQWSEWQAQFGSSSNDPNEGIEFGEQTFFPAIRVG 64
             E+QPSVHV Y  LTR SKQKLE LLQQWSEW+A+  S S D  + +E G++T+FPA+RVG
Sbjct:    77 EQQPSVHVTYKHLTRDSKQKLESLLQQWSEWEAEQNSLSEDQEQVLEAGDETYFPALRVG 136

Query:    65 KAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDD 124
               K  +VSFW D QT +  +K  +P +S  TPLY+RG+ +GL SG  S+N+EGGLEIIDD
Sbjct:   137 LQKTSSVSFWFDYQTGHSSSKKSVPVESSTTPLYNRGFTIGLDSG--SNNVEGGLEIIDD 194

Query:   125 ASRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDG 184
               RCFNCG+YSHS++ECP+P D+ AV+NAR+QHK KRNQ   SR P RYYQ+   GKYDG
Sbjct:   195 PPRCFNCGAYSHSIRECPRPFDRSAVSNARRQHKRKRNQTPGSRLPSRYYQSLQRGKYDG 254

Query:   185 LRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD-SEDDDQPSGITIYADGEIKE 243
             L+PG+LDAETR+LLGL ELDPPPWL+RMRE+GYPPGY    EDDD  S ITI+ + E KE
Sbjct:   255 LKPGSLDAETRKLLGLKELDPPPWLNRMREIGYPPGYFAVEEDDDDHSRITIFGEEETKE 314

Query:   244 GQE----DGEIIETGRPASKRK-MTTEFPGINAPIPENADERLW 282
              +E    +GEI+E   P   RK MT  FPGINAPIPENAD  LW
Sbjct:   315 EEEVKTEEGEILEKASPQEPRKIMTVGFPGINAPIPENADSWLW 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 = 2.4e-19, P = 2.4e-19
 Identities = 60/179 (33%), Positives = 94/179 (52%)

Query:   114 NLEGGLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRN 169
             +LEG  EI   A R    CFNCGS  H +K+CP PR+   ++  RK++    ++ ++   
Sbjct:   212 SLEGQ-EIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACSETNSQNF 270

Query:   170 PMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQ 229
               RY+      ++   +PG +  E +  LGL +   PP+++RMR+LGYPPG+L  E + +
Sbjct:   271 QQRYHAEEVEERFGRFKPGVISEELQDALGLTDKSLPPFIYRMRQLGYPPGWL-KEAELE 329

Query:   230 PSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 282
              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

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

 Score = 246 (91.7 bits), Expect = 4.7e-19, Sum P(2) = 4.7e-19
 Identities = 49/157 (31%), Positives = 77/157 (49%)

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

Query:   186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ 245
             +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+     
Sbjct:   186 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKDDNET 243

Query:   246 EDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 282
             ED   ++             +PG N   P    +  W
Sbjct:   244 EDEGYLQPKHVTYDVSKLINYPGFNISTPSGIPDE-W 279

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

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

 Score = 250 (93.1 bits), Expect = 6.1e-19, P = 6.1e-19
 Identities = 50/156 (32%), Positives = 80/156 (51%)

Query:   128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 187
             CFNCGS  H +KECP PR+   ++  RK++     + S      RY+      ++   +P
Sbjct:   232 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEASGQSFQQRYHAEEVEERFGRFKP 291

Query:   188 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ-E 246
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y   +  +G+ E
Sbjct:   292 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALYDGNDDADGETE 350

Query:   247 DGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 282
              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

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

 Score = 249 (92.7 bits), Expect = 7.8e-19, P = 7.8e-19
 Identities = 49/156 (31%), Positives = 81/156 (51%)

Query:   128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 187
             CFNCGS  H +KECP PR+   ++  RK++     + ++     RY+      ++   +P
Sbjct:   231 CFNCGSEEHQMKECPMPRNAARISEKRKEYMDACGEANSQSFQQRYHAEEVEERFGRFKP 290

Query:   188 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQ-E 246
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y   +  +G+ E
Sbjct:   291 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELETSGLALYDGNDDADGETE 349

Query:   247 DGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 282
              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 = 3.6e-18, P = 3.6e-18
 Identities = 52/161 (32%), Positives = 84/161 (52%)

Query:   128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 187
             CFNCGS  H +K+CP PR+   ++  RK++     + +      RY+      ++   +P
Sbjct:   231 CFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGETNNQNFQQRYHAEEVEERFGRFKP 290

Query:   188 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQED 247
             G +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + + SG+ +Y DG  K+G  D
Sbjct:   291 GVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELENSGLALY-DG--KDGA-D 345

Query:   248 GEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 282
             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 = 5.9e-18, P = 5.9e-18
 Identities = 50/159 (31%), Positives = 80/159 (50%)

Query:   126 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGL 185
             S CFNCGS  H +K+CPKPR+   ++  RK+      + S      RY+      ++   
Sbjct:   222 SHCFNCGSEEHQIKDCPKPRNAARISEKRKEFMEAYGEASNQNFQQRYHAEEVEERFGKF 281

Query:   186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGE-IKEG 244
             +PG +  E +  LG+     PP+++RMR+LGYPPG+L  E + + SG+ +Y DG+ I + 
Sbjct:   282 KPGVISGELQDALGVTAKSLPPFIYRMRQLGYPPGWL-KEAEMEHSGLALY-DGKGIDDN 339

Query:   245 Q-EDGEIIETGRPASKRKMTTEFPGINAPIPENADERLW 282
             + 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 = 6.3e-18, P = 6.3e-18
 Identities = 59/179 (32%), Positives = 92/179 (51%)

Query:   114 NLEGGLEIIDDASR----CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRN 169
             +LEG  EI   A R    CFNCGS  H +K+CP PR+   ++  RK++     + +    
Sbjct:   212 SLEGQ-EIQVKAKRPKPHCFNCGSEEHQMKDCPMPRNAARISEKRKEYMDACGEANNQNF 270

Query:   170 PMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQ 229
               RY+      ++   +PG +  E +  LG+ +   PP+++RMR+LGYPPG+L  E + +
Sbjct:   271 QQRYHAEEVEERFGRFKPGVISEELQDALGVTDKSLPPFIYRMRQLGYPPGWL-KEAELE 329

Query:   230 PSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTE------FPGINAPIPENADERLW 282
              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 = 3.4e-17, P = 3.4e-17
 Identities = 53/149 (35%), Positives = 80/149 (53%)

Query:   128 CFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRP 187
             CFNC S  H L++CPKP+D   +N  RK+     +QN+  R+  RY+      ++   +P
Sbjct:   221 CFNCCSEDHQLRDCPKPKDMARINEKRKEF----SQNN--RSNQRYHAEEVEERFAKYKP 274

Query:   188 GALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQED 247
             G +  +    LG+     PP+++RMRELGYPPG+L  E + + SG+ +Y DG   +G E+
Sbjct:   275 GIMSQDLLDALGMTTNTLPPFIYRMRELGYPPGWL-KEAELENSGLMLY-DGS-NDGDEN 331

Query:   248 GEIIETGRPASKRKMTTEFPGINAPIPEN 276
                 +     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	417
pfam04046	48	pfam04046, PSP, PSP	7e-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 = 7e-14
 Identities = 23/36 (63%), Positives = 27/36 (75%)

Query: 186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGY 221
           +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: 186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITI 235
           +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 = 46.1 bits (109), Expect = 2e-05
 Identities = 20/38 (52%), Positives = 25/38 (65%)

Query: 186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD 223
           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: 127 RCFNCGSYSHSLKECPK 143
            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	417
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	98.63
PF00098	18	zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi	97.32
PF14392	49	zf-CCHC_4: Zinc knuckle	91.74
smart00343	26	ZnF_C2HC zinc finger.	90.63
COG5082	190	AIR1 Arginine methyltransferase-interacting protei	90.2
PF13696	32	zf-CCHC_2: Zinc knuckle	87.73
PTZ00368	148	universal minicircle sequence binding protein (UMS	86.17
PTZ00368	148	universal minicircle sequence binding protein (UMS	85.84

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

Probab=100.00  E-value=3.2e-47  Score=385.85  Aligned_cols=265  Identities=34%  Similarity=0.567  Sum_probs=216.8

Q ss_pred             CCccccccceeeecceeccCCCCCceeeEEeccccccccCCCCCCCCCCCCccccccccccccCCCCCCcCCCcccccCC
Q 014840           46 PNEGIEFGEQTFFPAIRVGKAKGPAVSFWIDNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSNLEGGLEIIDDA  125 (417)
Q Consensus        46 ~~e~~e~G~~~~fpa~~v~~~~~~a~sF~~D~~~~~~~n~~~~~~~~~~VPlYdr~~~~~L~s~Dg~s~~e~~~Ei~~~~  125 (417)
                      ..+++++++.+|+| +++++.+...++||++++....--++..+.+.. +   ||.++.+|.+.+++.+++++..|.+ .
T Consensus        55 qqd~l~~te~a~~~-fr~~~qe~~t~s~wl~~~~~ek~gedl~~~e~~-t---dr~~a~~l~sq~~s~tvek~~~v~~-~  128 (485)
T KOG2673|consen   55 QQDLLGVTEKAFPP-FRYRMQELGTPSFWLKNAELEKSGEDLYLGEDS-T---DRETAVGLISQNKSVTVEKSKLVNK-C  128 (485)
T ss_pred             HHHHhhcccccccc-hhhhHHhhcCchhhhhhcccccChhhhcccccc-c---cccceecccccccchhhhhhhhhcc-C
Confidence            56788888888888 999999999999999999888666666666554 2   9999999999999999998877654 4


Q ss_pred             CceecCCCCCCCCCCCCCccCHHHHHHHHHHHHHhhccCCCCCCCceeeecccCccccCCCCCcCCHHHHHHhCCCCCCC
Q 014840          126 SRCFNCGSYSHSLKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDP  205 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYYe~k~e~k~~~~kPG~LS~eLReALGm~~~~p  205 (417)
                      -.|||||++.|+|+|||+|+|+++|+.+||+++..++|        |||.....++++|||||+||.+||.|||+.+++|
T Consensus       129 ~~CFNC~g~~hsLrdC~rp~d~s~I~r~rkek~~~rnq--------ry~~~teq~re~h~KPG~lS~~~R~al~l~~~d~  200 (485)
T KOG2673|consen  129 DPCFNCGGTPHSLRDCPRPFDFSRIQRARKEKMVFRNQ--------RYYQDTEQGREDHFKPGVLSGNTRSALGLSPGDP  200 (485)
T ss_pred             ccccccCCCCCccccCCCccccHHHHHHHHhhccccce--------eeeeecchhhhcccCCcccchhHHHhhcCCCCCc
Confidence            55999999999999999999999999999999887774        8998876669999999999999999999999999


Q ss_pred             hHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCCCCCcchhccCCCCCCCeeeeecCCCCCC-CCCCcchhcccc
Q 014840          206 PPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEGQEDGEIIETGRPASKRKMTTEFPGINAP-IPENADERLWAA  284 (417)
Q Consensus       206 PPWL~~Mr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~~EDgEi~e~~~~~~~~kk~V~fPGFNaP-iP~g~d~~~w~~  284 (417)
                      |+|+||||++||||||+.++ ..+.+||+||+...   .++|.|+.....++++.+|+|.|||||.+ .|++..++.|..
T Consensus       201 P~~~yRMR~lGYPPg~L~~s-~~e~s~i~if~eet---~~~dee~ese~PP~~~~~K~~~f~gfn~~~~p~~~~e~~ke~  276 (485)
T KOG2673|consen  201 PEWKYRMRRLGYPPGYLRKS-DMEVSGIKIFSEET---FQFDEELESETPPEPQGTKPVVFPGFNPKGTPPNDREDSKEA  276 (485)
T ss_pred             hHHHHHHhhccCCchhhhhh-hcccccceeecccc---cccCcccCCCCCCCCCCCCCcccCCCCCCCCCCCChhhcccc
Confidence            99999999999999999977 67899999997222   22223333334678899999999999999 999999888886


Q ss_pred             CCCCCCcccccccccccCCCCCccccccccccccccccCCCCCCCCCCCCCCCCCCC-CCC
Q 014840          285 RPSSSDSSRDRSHHRLNHHSESISRGRYHEQRWSRDYRDDGPPGVDPVSSYPPRYGG-YDY  344 (417)
Q Consensus       285 ~P~~~~~~r~~~~~~~~~~~e~~~r~~~~~~r~~~~~rd~gppg~~~~~s~~pr~~~-~d~  344 (417)
                      +   .++|+.--+..             .-.-...++++++|.|+++..++++++|. +|+
T Consensus       277 ~---r~~s~s~~q~~-------------l~~~~l~~k~~dl~~~~e~s~~~~~~~~t~~D~  321 (485)
T KOG2673|consen  277 P---RDASCSVDQDA-------------LTLSRLEKKQRDLPAGLEQSESAPSDSGTEVDD  321 (485)
T ss_pred             c---chhhhhhhHHH-------------hhhhHHHHHhhhcccccccccCCCcccCCcccc
Confidence            2   34443211111             11111237889999999999999999998 666

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

Probab=99.89  E-value=5.9e-24  Score=215.69  Aligned_cols=82  Identities=33%  Similarity=0.638  Sum_probs=76.0

Q ss_pred             CCCCCceeeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCC
Q 014840          166 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG  244 (417)
Q Consensus       166 ~sr~GdrYYe~k-~e~k~~~~kPG~LS~eLReALGm~~~~pPPWL~~Mr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~  244 (417)
                      -+.+|+.||+++ .+..+++.+||.||+|||.||||+.+.|||||++||++|+|||||+                     
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            468999999998 5677899999999999999999999999999999999999999996                     


Q ss_pred             CCCcchhccCCCCCCCeeeeecCCCCCCCCCCcchhccccCCCCCC
Q 014840          245 QEDGEIIETGRPASKRKMTTEFPGINAPIPENADERLWAARPSSSD  290 (417)
Q Consensus       245 ~EDgEi~e~~~~~~~~kk~V~fPGFNaPiP~g~d~~~w~~~P~~~~  290 (417)
                                         ++|||+|+|||+|+.   ||++|++|.
T Consensus       310 -------------------lkIpGLNapIPeg~s---~Gyh~gGWG  333 (500)
T KOG2330|consen  310 -------------------LKIPGLNAPIPEGCS---FGYHAGGWG  333 (500)
T ss_pred             -------------------ccCCCCCCCCCcccc---cccccCCCc
Confidence                               789999999999998   888888773

>smart00581 PSP proline-rich domain in spliceosome associated proteins

Probab=99.88  E-value=1.7e-23  Score=160.47  Aligned_cols=42  Identities=52%  Similarity=1.112  Sum_probs=40.8

Q ss_pred             ccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 014840          182 YDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  223 (417)
Q Consensus       182 ~~~~kPG~LS~eLReALGm~~~~pPPWL~~Mr~~GyPPgYp~  223 (417)
                      |++||||+||++||+||||.++++||||++||++|||||||+
T Consensus         1 ~~~~kPG~lS~~LR~ALG~~~~~pPPWl~~Mq~~G~PPsYp~   42 (54)
T smart00581        1 FKHFKPGRISDELREALGLPPGQPPPWLYRMRRLGYPPGYPR   42 (54)
T ss_pred             CCCccCCcCCHHHHHHcCCCCCCCChHHHHHHHHCCCCCCcc
Confidence            578999999999999999999999999999999999999996

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

Probab=99.83  E-value=3.6e-21  Score=144.68  Aligned_cols=38  Identities=66%  Similarity=1.307  Sum_probs=37.0

Q ss_pred             CCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCC
Q 014840          186 RPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLD  223 (417)
Q Consensus       186 kPG~LS~eLReALGm~~~~pPPWL~~Mr~~GyPPgYp~  223 (417)
                      |||+||++||+||||.++++||||++||++||||||++
T Consensus         1 kPG~lS~~LR~ALg~~~~~~PPwl~~M~~~G~PP~y~~   38 (48)
T PF04046_consen    1 KPGKLSDELREALGMQENDPPPWLYRMRRLGYPPGYPD   38 (48)
T ss_pred             CCcccCHHHHHHcCCCCCCCChHHHHHHhcCCCCCCcc
Confidence            79999999999999999999999999999999999975

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

Probab=99.75  E-value=8.1e-19  Score=174.76  Aligned_cols=81  Identities=38%  Similarity=0.667  Sum_probs=70.3

Q ss_pred             CCCCCceeeecc-cCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCCCCCCCCCCCCCCCCCceeecCCCccCC
Q 014840          166 ASRNPMRYYQNS-AGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGYPPGYLDSEDDDQPSGITIYADGEIKEG  244 (417)
Q Consensus       166 ~sr~GdrYYe~k-~e~k~~~~kPG~LS~eLReALGm~~~~pPPWL~~Mr~~GyPPgYp~~a~~~q~SGl~IF~Dg~~~~~  244 (417)
                      -+.||+.||+++ .....++.+||.||+|||+||||.+++|||||.+||++|+|||||+                     
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            468999999998 4445689999999999999999999999999999999999999996                     


Q ss_pred             CCCcchhccCCCCCCCeeeeecCCCC-CCCC-CCcchhccccCCCCC
Q 014840          245 QEDGEIIETGRPASKRKMTTEFPGIN-APIP-ENADERLWAARPSSS  289 (417)
Q Consensus       245 ~EDgEi~e~~~~~~~~kk~V~fPGFN-aPiP-~g~d~~~w~~~P~~~  289 (417)
                                         ++|||+| +++| +|.-   ||+.|+.|
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   67666655

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

Probab=98.63  E-value=1.7e-08  Score=104.64  Aligned_cols=137  Identities=22%  Similarity=0.358  Sum_probs=102.5

Q ss_pred             CCCCCCccCHHHHHHHHHHHHHhhccCCCCCCCceeeecccCccccCCCCCcCCHHHHHHhCCCCCCChHHHHHHHhcCC
Q 014840          138 LKECPKPRDKDAVNNARKQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLHRMRELGY  217 (417)
Q Consensus       138 LrdCP~PRd~a~In~~Rk~f~~~r~q~~~sr~GdrYYe~k~e~k~~~~kPG~LS~eLReALGm~~~~pPPWL~~Mr~~Gy  217 (417)
                      +++||.|+| ++|+..|.+++.+-..-...-++.+++..........+.+|.|| ++.++|+-.+.+.+|++++||++|+
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 99999999998764332333456788877777888999999999 8899999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCceeecCCCc-cCCCCCcchhccCCCCCCCeeeeecC--CCC-CCCCCCc
Q 014840          218 PPGYLDSEDDDQPSGITIYADGEI-KEGQEDGEIIETGRPASKRKMTTEFP--GIN-APIPENA  277 (417)
Q Consensus       218 PPgYp~~a~~~q~SGl~IF~Dg~~-~~~~EDgEi~e~~~~~~~~kk~V~fP--GFN-aPiP~g~  277 (417)
                      |+.|++.+. .+.+|..||.-... +-..+.|.+..+.....+.++.|.++  =|| .-.|.++
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            999998544 45788888842222 22456666655555555566666666  444 4456655

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

Probab=97.32  E-value=0.00011  Score=45.43  Aligned_cols=18  Identities=50%  Similarity=1.315  Sum_probs=16.5

Q ss_pred             CceecCCCCCCCCCCCCC
Q 014840          126 SRCFNCGSYSHSLKECPK  143 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~  143 (417)
                      ..|||||..+|..++||+
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=91.74  E-value=0.062  Score=40.18  Aligned_cols=19  Identities=58%  Similarity=1.183  Sum_probs=17.5

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 014840          125 ASRCFNCGSYSHSLKECPK  143 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~  143 (417)
                      ...||+||..+|..++||+
T Consensus        31 p~~C~~C~~~gH~~~~C~k   49 (49)
T PF14392_consen   31 PRFCFHCGRIGHSDKECPK   49 (49)
T ss_pred             ChhhcCCCCcCcCHhHcCC
Confidence            4789999999999999985

>smart00343 ZnF_C2HC zinc finger

Probab=90.63  E-value=0.12  Score=33.68  Aligned_cols=18  Identities=44%  Similarity=1.309  Sum_probs=16.1

Q ss_pred             ceecCCCCCCCCCCCCCc
Q 014840          127 RCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       127 ~CFNCG~~~HsLrdCP~P  144 (417)
                      .||+||..+|..++||..
T Consensus         1 ~C~~CG~~GH~~~~C~~~   18 (26)
T smart00343        1 KCYNCGKEGHIARDCPKX   18 (26)
T ss_pred             CCccCCCCCcchhhCCcc
Confidence            499999999999999844

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

Probab=90.20  E-value=0.14  Score=48.92  Aligned_cols=19  Identities=42%  Similarity=1.167  Sum_probs=17.8

Q ss_pred             CCCceecCCCCCCCCCCCC
Q 014840          124 DASRCFNCGSYSHSLKECP  142 (417)
Q Consensus       124 ~~~~CFNCG~~~HsLrdCP  142 (417)
                      ....|||||+.+|..+|||
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=87.73  E-value=0.25  Score=35.11  Aligned_cols=20  Identities=30%  Similarity=0.881  Sum_probs=18.1

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 014840          125 ASRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~P  144 (417)
                      .-.|+-|+..+|-++|||.-
T Consensus         8 ~Y~C~~C~~~GH~i~dCP~~   27 (32)
T PF13696_consen    8 GYVCHRCGQKGHWIQDCPTN   27 (32)
T ss_pred             CCEeecCCCCCccHhHCCCC
Confidence            46899999999999999983

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

Probab=86.17  E-value=0.59  Score=41.38  Aligned_cols=22  Identities=36%  Similarity=0.925  Sum_probs=17.1

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 014840          125 ASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      ...||||+..+|..++||.+++
T Consensus        27 ~~~C~~Cg~~GH~~~~Cp~~~~   48 (148)
T PTZ00368         27 ARPCYKCGEPGHLSRECPSAPG   48 (148)
T ss_pred             CccCccCCCCCcCcccCcCCCC
Confidence            4678888888888888887763

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

Probab=85.84  E-value=0.42  Score=42.35  Aligned_cols=20  Identities=35%  Similarity=1.022  Sum_probs=18.1

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 014840          126 SRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~PR  145 (417)
                      +.||||+..+|..++||.+.
T Consensus         1 ~~C~~C~~~GH~~~~c~~~~   20 (148)
T PTZ00368          1 MVCYRCGGVGHQSRECPNSA   20 (148)
T ss_pred             CcCCCCCCCCcCcccCcCCC
Confidence            47999999999999999964

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	417
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-09
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	6e-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 = 58.7 bits (141), Expect = 2e-09
 Identities = 74/464 (15%), Positives = 120/464 (25%), Gaps = 164/464 (35%)

Query: 14  YNSLTRASK-QKLEELLQQWSEWQAQFGSSSNDPNEGIE------FGEQTFFPAIRVGKA 66
           YN ++R     KL + L +              P + +        G+     A+ V  +
Sbjct: 129 YN-VSRLQPYLKLRQALLEL------------RPAKNVLIDGVLGSGKTWV--ALDVCLS 173

Query: 67  KGPAVS-----FWI-------DNQTRNQQNKNFIPSDSHGTPLYDRGYALGLTSGDGSSN 114
                      FW+                K     D + T   D    + L      + 
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 115 L---------EGGLEIIDDAS-----RCFNCGSYSHSLKECP---KPRDK---DAVNNAR 154
           L         E  L ++ +         FN          C      R K   D ++ A 
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS--------CKILLTTRFKQVTDFLSAAT 285

Query: 155 KQHKSKRNQNSASRNPMRYYQNSAGGKYDGLRPGALDAETRQLLGLGELDPPPWLH-RMR 213
             H S                       D         E + LL         +L  R +
Sbjct: 286 TTHIS----------------------LDHHSMTLTPDEVKSLLLK-------YLDCRPQ 316

Query: 214 ELGYPPGYLDSEDDDQPSGITIYADGEIKEG----------QED--GEIIETG----RPA 257
           +L  P           P  ++I A+  I++G            D    IIE+      PA
Sbjct: 317 DL--PR----EVLTTNPRRLSIIAE-SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Query: 258 SKRKMTTE---FPGINAPIPENADERLWAARPSSSDSSRDRSHHRLNH-HSESISRGRYH 313
             RKM      FP  +A IP      +W       D  +      +N  H  S+      
Sbjct: 370 EYRKMFDRLSVFPP-SAHIPTILLSLIW------FDVIKSDVMVVVNKLHKYSLV----- 417

Query: 314 EQRWSRDYRDDGPPGVDPVSSYPPRYGGYDYYSSHSRSPTRGRSYSDRDRDDYASHGSYS 373
            ++  ++                        Y               +  ++YA H S  
Sbjct: 418 -EKQPKEST----------------ISIPSIY----------LELKVKLENEYALHRSIV 450

Query: 374 SPYSNRHTSPPDYDLDRYRDDYSREYLSRSM------DEYDRFR 411
             Y+   T   D  +  Y D Y   ++   +      +    FR
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 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 = 37.2 bits (86), Expect = 6e-04
 Identities = 10/25 (40%), Positives = 11/25 (44%)

Query: 123 DDASRCFNCGSYSHSLKECPKPRDK 147
               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	417
1nc8_A	29	Nucleocapsid protein; HIV-2, RNA recognition, zinc	97.31
1dsq_A	26	Nucleic acid binding protein P14; CCHC type zinc f	97.19
1a6b_B	40	Momulv, zinc finger protein NCP10; nucleocapsid pr	96.68
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	96.08
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	96.04
1u6p_A	56	GAG polyprotein; MLV, A-minor K-turn, stem loop, b	95.8
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	95.57
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	95.48
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	95.3
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	95.1
2ysa_A	55	Retinoblastoma-binding protein 6; zinc finger, CCH	94.73
2a51_A	39	Nucleocapsid protein; sivlhoest, structure, NCP8,	94.66
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	94.63
1cl4_A	60	Protein (GAG polyprotein); nucleocapsid protein, R	94.33
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	94.3
2ihx_A	61	Nucleocapsid (NC) protein; protein-RNA complex, vi	94.12
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	94.03
1a1t_A	55	Nucleocapsid protein; stem-loop RNA, viral protein	93.74
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	93.28
2ec7_A	49	GAG polyprotein (PR55GAG); nucleocapsid protein, H	93.19
2cqf_A	63	RNA-binding protein LIN-28; CCHC zinc-finger, stru	93.04
2bl6_A	37	Nucleocapsid protein P11; lentivirus, polyprotein,	92.23
2li8_A	74	Protein LIN-28 homolog A; zinc finger, micro RNA,	90.95
3ts2_A	148	Protein LIN-28 homolog A; microrna biogenesis, pro	90.8
3nyb_B	83	Protein AIR2; polya RNA polymerase, zinc knuckle p	88.92
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	87.32
2lli_A	124	Protein AIR2; RNA surveillance, RNA degradation, R	86.59

>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=97.31  E-value=6.9e-05  Score=49.69  Aligned_cols=22  Identities=45%  Similarity=1.081  Sum_probs=19.6

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 014840          125 ASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      ...|||||.++|..++||.|+-
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=0.00082  Score=48.23  Aligned_cols=23  Identities=35%  Similarity=0.735  Sum_probs=20.8

Q ss_pred             CCCceecCCCCCCCCCCCCCccC
Q 014840          124 DASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       124 ~~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      ....|||||..+|-.++||.++.
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            46899999999999999999875

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

Probab=96.08  E-value=0.0023  Score=44.53  Aligned_cols=19  Identities=47%  Similarity=1.209  Sum_probs=16.3

Q ss_pred             ceecCCCCCCCCCCCCCcc
Q 014840          127 RCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       127 ~CFNCG~~~HsLrdCP~PR  145 (417)
                      .|||||..+|..++||.|+
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            5899998899999998874

>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=96.04  E-value=0.0027  Score=46.27  Aligned_cols=21  Identities=48%  Similarity=1.137  Sum_probs=16.2

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...|||||..+|..++||.|+
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            357888888888888888774

>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=95.80  E-value=0.0032  Score=48.08  Aligned_cols=24  Identities=33%  Similarity=0.649  Sum_probs=21.1

Q ss_pred             cCCCceecCCCCCCCCCCCCCccC
Q 014840          123 DDASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       123 ~~~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      .....|||||..+|-.+|||.+..
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            346899999999999999999864

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

Probab=95.57  E-value=0.0055  Score=42.08  Aligned_cols=18  Identities=39%  Similarity=1.056  Sum_probs=13.1

Q ss_pred             ceecCCCCCCCCCCCCCc
Q 014840          127 RCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       127 ~CFNCG~~~HsLrdCP~P  144 (417)
                      .|||||..+|..++||.|
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            477777777777777765

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

Probab=95.48  E-value=0.005  Score=46.64  Aligned_cols=20  Identities=45%  Similarity=1.050  Sum_probs=11.0

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 014840          126 SRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ..|||||...|..++||.++
T Consensus         5 ~~C~~Cg~~GH~a~~C~~~~   24 (61)
T 2ihx_A            5 GLCYTCGSPGHYQAQCPKKR   24 (61)
T ss_dssp             TBCSSSCCBTCCGGGCTTTT
T ss_pred             CcccccCCCCeehhhCcCCc
Confidence            34555555555555555554

>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=95.30  E-value=0.0062  Score=44.87  Aligned_cols=20  Identities=45%  Similarity=1.089  Sum_probs=14.3

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 014840          125 ASRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~P  144 (417)
                      ...|||||..+|..++||.|
T Consensus        12 ~~~C~~Cg~~GH~a~~C~~~   31 (55)
T 1a1t_A           12 TVKCFNCGKEGHIAKNCRAP   31 (55)
T ss_dssp             TCBCTTTCCBSSCGGGCSSC
T ss_pred             CcceeeeCCCCcChhhcCCC
Confidence            35677777777777777776

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

Probab=95.10  E-value=0.011  Score=45.19  Aligned_cols=19  Identities=53%  Similarity=1.268  Sum_probs=13.1

Q ss_pred             CceecCCCCCCCCCCCCCc
Q 014840          126 SRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~P  144 (417)
                      ..|||||..+|..++||.+
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            4577777777777777765

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

Probab=94.73  E-value=0.0084  Score=45.61  Aligned_cols=21  Identities=38%  Similarity=0.967  Sum_probs=18.1

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...||.||..+|.+++||...
T Consensus         7 ~~~C~kCGk~GH~~k~Cp~~~   27 (55)
T 2ysa_A            7 GYTCFRCGKPGHYIKNCPTNG   27 (55)
T ss_dssp             SCCCTTTCCTTSCGGGCSGGG
T ss_pred             CCccccCCCcCcccccCCCCC
Confidence            467999999999999998533

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

Probab=94.66  E-value=0.015  Score=40.34  Aligned_cols=19  Identities=47%  Similarity=1.186  Sum_probs=17.4

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 014840          125 ASRCFNCGSYSHSLKECPK  143 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~  143 (417)
                      ...|||||..+|..++||+
T Consensus        21 ~~~C~~Cg~~GH~~~~C~~   39 (39)
T 2a51_A           21 QEGCWNCGSKEHRFAQCPK   39 (39)
T ss_dssp             CSSCTTTCCSSSCTTTSCC
T ss_pred             CCccccCCCCCCccCcCcC
Confidence            4689999999999999995

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

Probab=94.63  E-value=0.017  Score=43.18  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 014840          125 ASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      ...||+||..+|..++||.+.+
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            4789999999999999999865

>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=94.33  E-value=0.0075  Score=45.18  Aligned_cols=22  Identities=32%  Similarity=0.806  Sum_probs=0.0

Q ss_pred             CceecCCCCCCCCCCCCCccCH
Q 014840          126 SRCFNCGSYSHSLKECPKPRDK  147 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~PRd~  147 (417)
                      ..|||||..+|..++||.+.+.
T Consensus         2 ~~Cf~Cg~~GH~a~~C~~~~~~   23 (60)
T 1cl4_A            2 GSCFKCGKKGHFAKNCHEHAHN   23 (60)
T ss_dssp             ----------------------
T ss_pred             CccccCCCCCcCHhhCcCCCCC
Confidence            3699999999999999988653

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

Probab=94.30  E-value=0.02  Score=45.45  Aligned_cols=21  Identities=48%  Similarity=1.141  Sum_probs=16.1

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...|||||..+|..++||.+.
T Consensus        24 ~~~C~~Cg~~GH~a~~C~~~~   44 (74)
T 2li8_A           24 GDRCYNCGGLDHHAKECKLPP   44 (74)
T ss_dssp             TSCCTTTCCSSSCTTTCSSCC
T ss_pred             CCcccccCCcCcCcccCCCCC
Confidence            457888888888888888653

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

Probab=94.12  E-value=0.015  Score=43.94  Aligned_cols=23  Identities=30%  Similarity=0.679  Sum_probs=19.3

Q ss_pred             CCceecCCCCCCCCCCCCCccCH
Q 014840          125 ASRCFNCGSYSHSLKECPKPRDK  147 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd~  147 (417)
                      ...|||||...|..++||.++..
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            36799999999999999998754

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

Probab=94.03  E-value=0.018  Score=46.77  Aligned_cols=22  Identities=32%  Similarity=0.800  Sum_probs=20.2

Q ss_pred             CCCceecCCCCCCCCCCCCCcc
Q 014840          124 DASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       124 ~~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ....|+|||..+|.-+|||++|
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            3578999999999999999988

>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=93.74  E-value=0.022  Score=41.88  Aligned_cols=21  Identities=29%  Similarity=0.933  Sum_probs=19.0

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...||+||..+|..++||..+
T Consensus        33 ~~~C~~Cg~~GH~~~~C~~~~   53 (55)
T 1a1t_A           33 KKGCWKCGKEGHQMKDCTERQ   53 (55)
T ss_dssp             CCBCTTTCCBSSCGGGCSSSC
T ss_pred             CCEeCCCCCcCCccCCCcCcC
Confidence            468999999999999999865

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

Probab=93.28  E-value=0.027  Score=49.55  Aligned_cols=22  Identities=45%  Similarity=1.103  Sum_probs=18.2

Q ss_pred             CCceecCCCCCCCCCCCCCccC
Q 014840          125 ASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      ..+|||||..+|..++||.|..
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            3579999999999999998654

>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=93.19  E-value=0.032  Score=40.48  Aligned_cols=21  Identities=29%  Similarity=0.963  Sum_probs=18.5

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...||+||..+|..++||...
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            367999999999999999754

>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=93.04  E-value=0.038  Score=42.14  Aligned_cols=21  Identities=33%  Similarity=0.755  Sum_probs=19.0

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...|||||..+|..++||...
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            478999999999999999764

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

Probab=92.23  E-value=0.043  Score=37.56  Aligned_cols=18  Identities=33%  Similarity=0.778  Sum_probs=16.7

Q ss_pred             CceecCCCCCCCCCCCCC
Q 014840          126 SRCFNCGSYSHSLKECPK  143 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~  143 (417)
                      ..||+||..+|..++||.
T Consensus        20 ~~C~~Cg~~GH~a~~C~~   37 (37)
T 2bl6_A           20 KVCFKCKQPGHFSKQCRS   37 (37)
T ss_dssp             TTCSSCCCTTGGGGTTCC
T ss_pred             CeEccCCCcCCccCcCcC
Confidence            689999999999999984

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

Probab=90.95  E-value=0.088  Score=41.68  Aligned_cols=21  Identities=33%  Similarity=0.755  Sum_probs=18.8

Q ss_pred             CCceecCCCCCCCCCCCCCcc
Q 014840          125 ASRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PR  145 (417)
                      ...||+||..+|..++||...
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            478999999999999999764

>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=90.80  E-value=0.085  Score=46.41  Aligned_cols=23  Identities=26%  Similarity=0.706  Sum_probs=19.4

Q ss_pred             CCceecCCCCCCCCCCCCCccCH
Q 014840          125 ASRCFNCGSYSHSLKECPKPRDK  147 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~PRd~  147 (417)
                      ...||+||..+|..++||...-.
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            46899999999999999976544

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

Probab=88.92  E-value=0.1  Score=42.19  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=17.2

Q ss_pred             CCCceecCCCCCCCCCCCCCc
Q 014840          124 DASRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       124 ~~~~CFNCG~~~HsLrdCP~P  144 (417)
                      +...||||++.+|..++||..
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            457899999999999999986

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

Probab=87.32  E-value=0.25  Score=41.37  Aligned_cols=19  Identities=32%  Similarity=0.847  Sum_probs=17.8

Q ss_pred             CCceecCCCCCCCCCCCCC
Q 014840          125 ASRCFNCGSYSHSLKECPK  143 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~  143 (417)
                      ...|||||+.+|..+|||+
T Consensus       105 ~~~Cy~Cg~~GH~a~dCp~  123 (124)
T 2lli_A          105 TIYCYNCGGKGHFGDDCKE  123 (124)
T ss_dssp             CCCTTTTSSSCTTTTTSCC
T ss_pred             CCCcCCCCCCCcCcccCcC
Confidence            5789999999999999997

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

Probab=86.59  E-value=0.29  Score=41.04  Aligned_cols=19  Identities=37%  Similarity=0.891  Sum_probs=13.7

Q ss_pred             CceecCCCCCCCCCCCCCc
Q 014840          126 SRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~P  144 (417)
                      ..||||+..+|..++||.+
T Consensus         5 ~~C~~C~~~GH~~~~Cp~~   23 (124)
T 2lli_A            5 PKCNNCSQRGHLKKDCPHI   23 (124)
T ss_dssp             SCCSSCSSSSCCTTTTTSC
T ss_pred             CcccCCCCCCcCcccCcCC
Confidence            4577777777777777763

---

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	417
d2exfa1	42	g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod	5e-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 = 37.9 bits (88), Expect = 5e-05
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 127 RCFNCGSYSHSLKECPKPRDK 147
           +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	417
d1nc8a_	29	HIV nucleocapsid {Human immunodeficiency virus typ	97.19
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	96.91
d2exfa1	42	HIV nucleocapsid {Human immunodeficiency virus typ	93.3
d1dsqa_	26	Nucleic acid binding protein p14 {Mouse mammary tu	91.19

>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=97.19  E-value=5.7e-05  Score=49.42  Aligned_cols=23  Identities=43%  Similarity=1.041  Sum_probs=20.3

Q ss_pred             CCCceecCCCCCCCCCCCCCccC
Q 014840          124 DASRCFNCGSYSHSLKECPKPRD  146 (417)
Q Consensus       124 ~~~~CFNCG~~~HsLrdCP~PRd  146 (417)
                      +...|||||-++|..++|--||-
T Consensus         5 ~~ikCfNCGkeGH~ar~CrAPRk   27 (29)
T d1nc8a_           5 KVIRCWNCGKEGHSARQCRAPRR   27 (29)
T ss_dssp             CCCBCTTTSCBSSCGGGCCSSSS
T ss_pred             ceeEeecCCccchhhhhccCccc
Confidence            35789999999999999999974

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

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

Probab=96.91  E-value=0.00017  Score=50.12  Aligned_cols=20  Identities=45%  Similarity=1.203  Sum_probs=15.8

Q ss_pred             CceecCCCCCCCCCCCCCcc
Q 014840          126 SRCFNCGSYSHSLKECPKPR  145 (417)
Q Consensus       126 ~~CFNCG~~~HsLrdCP~PR  145 (417)
                      .+|||||..+|..++||.|+
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            46888888888888888775

>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=93.30  E-value=0.019  Score=39.44  Aligned_cols=20  Identities=30%  Similarity=0.954  Sum_probs=17.7

Q ss_pred             CCceecCCCCCCCCCCCCCc
Q 014840          125 ASRCFNCGSYSHSLKECPKP  144 (417)
Q Consensus       125 ~~~CFNCG~~~HsLrdCP~P  144 (417)
                      ...||+||..+|..++||+.
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            35799999999999999974