Citrus Sinensis ID: 039779

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-
Protein Sequence
FGREPIALVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFSSLPSPQSQGKSGIDMLSAQVQSISLDQKTLNHSRSSSGDLSNLSPTCSSAGKDQVSI
Secondary Structure (PSIPRED)
cccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccHHHHHHccccccEEHHHHcccHHHHHccccHHHHHHHHHccccEEEEccEEEEcccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEccccccccHHHHccccHcccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHcccccccEHHHEEcHHHHHHHHHHHHHHHHHHHcccEEEEEcccEEEccccccccccccccccccccccccccccHHHHccccccEEEcccccccccccccccccccccccccccEEcc
Coil and Loop (DISEMBL)
fgrepialvsssssqsTSVIELAAAAAAAadedngaecgngnagskrppwnrqpsngaaemepvmgahswpalsettrgsssstksssdslkgsvdgsssssvlqgtaatnssshkqvsnnanpnsttnhaasnrqrsmkrnnshsssngglpqppasqgsvvegrsnnpsprdhtqksgfgsqfhggndhphprgsfkhrngnqhprgdgshhhnyggrrdqdrgnqdwnshrnysgrdahmqpqrvvqrftrhppppppppppssspfippppvrpfgspigfpefaspvyyvaaappealrgvpfvapipphavffpapdpqlhsriVTQIDyyfsnenlvkdTFLRqnmddqgwvPIRLIAGFNKVSLLTDNIQLILDALRSStvvevqgdrirkrndwmrwimppgkfsslpspqsqgksgiDMLSAQVQSISLdqktlnhsrsssgdlsnlsptcssagkdqvsi
Flexible Loop (DISEMBL)
fgrepialvsssssqsTSVIELAAAAAAAADEDNGAEcgngnagskrppwnrQPSNGAAEMEPVMGAHSWPALSEttrgsssstksssdslkgsvdgssSSSVLQGTAatnssshkqvsnnanpnsttnhaASNRQRSMKRNNShsssngglpqppasQGSVVEGRSNNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRnysgrdahmqPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDalrsstvvevqgdrirkrndwmrWIMPPGKFSSLPSPQSQGKSGIDMLSAQVQSISLDQKTLNHSrsssgdlsnlsptcssagkdqvsi
Low Complexity Region (SEG)
FGREPIALVsssssqstsVIELaaaaaaaaDEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGsssstksssdslkgsvdgsssssvlQGTAATNSSSHKQVSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHppppppppppssspfippppvrpfgspIGFPEFASpvyyvaaappEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFSSLPSPQSQGKSGIDMLSAQVQSISLDQKTlnhsrsssgdlsnlsPTCSSAGKDQVSI
Disordered region (IsUnstruct)
*****************************************************************************************************************************************************************************************************************************************************************************************PIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIM***************************************************************
Disordered Region (DISOPRED)
*********************************************************************************************************************************************************************************************************************************************************************************************************************************PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWI****************************************************************
Disordered Region (DISEMBL)
******************VIELAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPA***********************************************************************************************************GFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFT**************SPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFS*************DMLSAQVQSISL********************************
Disordered Region (DISPRO)
**REPIALVS**********************************************************************************************************************************************************************************************************************************************VQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPP*************************************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
FGREPIALVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFSSLPSPQSQGKSGIDMLSAQVQSISLDQKTLNHSRSSSGDLSNLSPTCSSAGKDQVSI
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	471	2.2.26 [Sep-21-2011]
Q659C4	914	La-related protein 1B OS=	yes	no	0.186	0.096	0.488	4e-19
Q6PKG0	1096	La-related protein 1 OS=H	no	no	0.180	0.077	0.470	1e-17
Q6ZQ58	1072	La-related protein 1 OS=M	no	no	0.178	0.078	0.464	7e-17
Q9P6K0	475	Uncharacterized HTH La-ty	yes	no	0.193	0.191	0.356	9e-16
Q9I7T7	1531	La-related protein CG1150	yes	no	0.184	0.056	0.425	1e-13
Q9VAW5	1673	La-related protein OS=Dro	no	no	0.286	0.080	0.278	3e-13
Q05CL8	570	La-related protein 7 OS=M	no	no	0.163	0.135	0.419	1e-10
Q4R627	581	La-related protein 7 OS=M	N/A	no	0.163	0.132	0.432	2e-10
Q4G0J3	582	La-related protein 7 OS=H	no	no	0.163	0.132	0.432	2e-10
Q5XI01	571	La-related protein 7 OS=R	no	no	0.163	0.134	0.419	2e-10

>sp|Q659C4|LAR1B_HUMAN La-related protein 1B OS=Homo sapiens GN=LARP1B PE=1 SV=2

 Score = 96.7 bits (239), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 43/88 (48%), Positives = 61/88 (69%)

Query: 319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQ 378
           +P  +  L   I  QI+YYFS ENL +D FLR  MD+QG++PI LIAGF +V  LT N+ 
Sbjct: 208 YPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLN 267

Query: 379 LILDALRSSTVVEVQGDRIRKRNDWMRW 406
           LIL+AL+ ST VE+  +++RK+ +  +W
Sbjct: 268 LILEALKDSTEVEIVDEKMRKKIEPEKW 295

Homo sapiens (taxid: 9606)

>sp|Q6PKG0|LARP1_HUMAN La-related protein 1 OS=Homo sapiens GN=LARP1 PE=1 SV=2

 Score = 91.7 bits (226), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/85 (47%), Positives = 58/85 (68%)

Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALR 385
           L   I  QI+YYFS +NL +D FLR+ MD  G++PI LIA F++V  LT +I LI  AL+
Sbjct: 403 LKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALK 462

Query: 386 SSTVVEVQGDRIRKRNDWMRWIMPP 410
            S VVE+  +++R+R +  +W +PP
Sbjct: 463 DSKVVEIVDEKVRRREEPEKWPLPP 487

Homo sapiens (taxid: 9606)

>sp|Q6ZQ58|LARP1_MOUSE La-related protein 1 OS=Mus musculus GN=Larp1 PE=1 SV=2

 Score = 89.0 bits (219), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 39/84 (46%), Positives = 57/84 (67%)

Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALR 385
           L   I  QI+YYFS +NL +D FLR+ MD  G++PI LIA F++V  LT +I LI  AL+
Sbjct: 378 LKDYIKRQIEYYFSVDNLERDFFLRRKMDADGFLPITLIASFHRVQALTTDISLIFAALK 437

Query: 386 SSTVVEVQGDRIRKRNDWMRWIMP 409
            S VVE+  +++R+R +  +W +P
Sbjct: 438 DSKVVEMVEEKVRRREEPEKWPLP 461

Mus musculus (taxid: 10090)

>sp|Q9P6K0|YLA3_SCHPO Uncharacterized HTH La-type RNA-binding protein C1527.03 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC1527.03 PE=1 SV=1

 Score = 85.5 bits (210), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 36/101 (35%), Positives = 62/101 (61%), Gaps = 10/101 (9%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           + +Q++YYFS ENL KD FLR++MDD+G+VP+  +A FN++   + ++ L+  A ++S +
Sbjct: 329 LTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAACKASDI 388

Query: 390 VEVQGD-------RIRKRNDWMRWIMPPG---KFSSLPSPQ 420
           ++V  D       ++R++  W  WI+P     KF     PQ
Sbjct: 389 IDVAIDLQSPMSIKVRRKETWSPWILPSESRLKFEMAKYPQ 429

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

>sp|Q9I7T7|Y1505_DROME La-related protein CG11505 OS=Drosophila melanogaster GN=CG11505 PE=1 SV=2

 Score = 78.6 bits (192), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 37/87 (42%), Positives = 51/87 (58%)

Query: 322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLIL 381
           P  +L   + TQ++YYFS ENL  DT+L   MD   +VPI  +A FN V  LT++I LI 
Sbjct: 264 PLDKLKQMLATQLEYYFSRENLANDTYLLSQMDSDQYVPIYTVARFNLVRKLTNDINLIT 323

Query: 382 DALRSSTVVEVQGDRIRKRNDWMRWIM 408
           + LR S  V+V    +R R +  R I+
Sbjct: 324 EVLRESPNVQVDDKGLRVRPNRKRCII 350

Drosophila melanogaster (taxid: 7227)

>sp|Q9VAW5|LARP_DROME La-related protein OS=Drosophila melanogaster GN=larp PE=1 SV=5

 Score = 77.0 bits (188), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 41/147 (27%), Positives = 74/147 (50%), Gaps = 12/147 (8%)

Query: 302 ALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPI 361
            L G  +   +P  A +       +   I  Q++YYFS +NL  D FLR+ MD +G++P+
Sbjct: 707 VLMGTHYFGNVP--AAYIELDANSIKEAIKKQVEYYFSVDNLTGDFFLRRKMDPEGYIPV 764

Query: 362 RLIAGFNKVSLLTDNIQLILDALRSSTVVEV-QGDRIRKRNDWMRWIM---------PPG 411
            LIA F++V  LT ++ +I++A++ S  +E+ +G ++R +     W +          P 
Sbjct: 765 TLIASFHRVLALTTDVAVIVNAIKESDKLELFEGYKVRTKTTPTTWPITEVPEVNEGEPK 824

Query: 412 KFSSLPSPQSQGKSGIDMLSAQVQSIS 438
              +L   Q +   G + L  Q ++ S
Sbjct: 825 AIGTLEQEQLEQNDGQEKLEEQTEADS 851

Drosophila melanogaster (taxid: 7227)

>sp|Q05CL8|LARP7_MOUSE La-related protein 7 OS=Mus musculus GN=Larp7 PE=1 SV=2

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 54/81 (66%), Gaps = 4/81 (4%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLTDNIQLILD 382
           Q+ + I  Q+D++F + NL KD FLR+ ++    G+V I L+  FNK+  LT + +LI  
Sbjct: 27  QVLADIAKQVDFWFGDANLHKDKFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIAR 86

Query: 383 ALRSSTVVE--VQGDRIRKRN 401
           AL+SS+VVE  ++G RIR++ 
Sbjct: 87  ALKSSSVVELDLEGTRIRRKK 107

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Mus musculus (taxid: 10090)

>sp|Q4R627|LARP7_MACFA La-related protein 7 OS=Macaca fascicularis GN=LARP7 PE=2 SV=1

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 53/81 (65%), Gaps = 4/81 (4%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLTDNIQLILD 382
           Q+ + I  Q+D++F + NL KD FLR+ ++    G+V I L+  FNK+  LT + +LI  
Sbjct: 33  QVLADIAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIAR 92

Query: 383 ALRSSTVVE--VQGDRIRKRN 401
           ALRSS VVE  ++G RIR++ 
Sbjct: 93  ALRSSAVVELDLEGTRIRRKK 113

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Macaca fascicularis (taxid: 9541)

>sp|Q4G0J3|LARP7_HUMAN La-related protein 7 OS=Homo sapiens GN=LARP7 PE=1 SV=1

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 35/81 (43%), Positives = 53/81 (65%), Gaps = 4/81 (4%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLTDNIQLILD 382
           Q+ + I  Q+D++F + NL KD FLR+ ++    G+V I L+  FNK+  LT + +LI  
Sbjct: 33  QVLADIAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIAR 92

Query: 383 ALRSSTVVE--VQGDRIRKRN 401
           ALRSS VVE  ++G RIR++ 
Sbjct: 93  ALRSSAVVELDLEGTRIRRKK 113

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Homo sapiens (taxid: 9606)

>sp|Q5XI01|LARP7_RAT La-related protein 7 OS=Rattus norvegicus GN=Larp7 PE=1 SV=2

 Score = 67.4 bits (163), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/81 (41%), Positives = 54/81 (66%), Gaps = 4/81 (4%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLTDNIQLILD 382
           Q+ + I  Q+D++F + NL KD FLR+ ++    G+V I L+  FNK+  LT + +LI  
Sbjct: 28  QVLADIAKQVDFWFGDANLHKDRFLREQIEKSRDGYVDISLLVSFNKMKKLTTDGKLIAR 87

Query: 383 ALRSSTVVE--VQGDRIRKRN 401
           AL+SS+VVE  ++G RIR++ 
Sbjct: 88  ALKSSSVVELDLEGTRIRRKK 108

Negative transcriptional regulator of polymerase II genes, acting by means of the 7SK RNP system. Within the 7SK RNP complex, the positive transcription elongation factor b (P-TEFb) is sequestered in an inactive form, preventing RNA polymerase II phosphorylation and subsequent transcriptional elongation.

Rattus norvegicus (taxid: 10116)

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	471
224133632	550	predicted protein [Populus trichocarpa]	0.963	0.825	0.567	1e-117
302143562	568	unnamed protein product [Vitis vinifera]	0.895	0.742	0.554	1e-113
449434122	555	PREDICTED: uncharacterized protein LOC10	0.845	0.717	0.523	1e-106
449517138	567	PREDICTED: uncharacterized LOC101218665	0.845	0.701	0.509	1e-105
357483893	670	ATP synthase subunit a chloroplastic [Me	0.847	0.595	0.505	1e-105
356495348	501	PREDICTED: uncharacterized protein LOC10	0.902	0.848	0.514	1e-104
356540834	510	PREDICTED: uncharacterized protein LOC10	0.857	0.792	0.531	1e-104
449434124	529	PREDICTED: uncharacterized protein LOC10	0.845	0.752	0.521	3e-98
449517140	529	PREDICTED: uncharacterized LOC101218903	0.845	0.752	0.521	3e-98
356502094	497	PREDICTED: uncharacterized protein LOC10	0.902	0.855	0.479	4e-89

>gi|224133632|ref|XP_002327642.1| predicted protein [Populus trichocarpa] gi|222836727|gb|EEE75120.1| predicted protein [Populus trichocarpa]

 Score =  427 bits (1099), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 275/485 (56%), Positives = 340/485 (70%), Gaps = 31/485 (6%)

Query: 8   LVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGSKRPPWNR--QPSNGAAEMEPVM 65
           +V  + S+ +S     A  AAA          + N  SKRP WN+    SNG  E+  VM
Sbjct: 55  IVRGAESEFSSTASTVAEQAAAVLVVEEESVESENNASKRPVWNKPLTASNGPVEIGNVM 114

Query: 66  GAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVL--QGTAATNSSSHKQVSNNAN 123
           GA SWPALSE+   +SSSTKSSSDSLKGS+   SSSSV   QG    +SSS KQV+N+AN
Sbjct: 115 GADSWPALSESAARASSSTKSSSDSLKGSLSDGSSSSVSVSQGIGTASSSSQKQVANSAN 174

Query: 124 PNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGFGS 183
            NST+NH    RQRSMKR+ ++++SNGG PQ P SQG+  EG SNN S  DH Q++   S
Sbjct: 175 TNSTSNHIVPVRQRSMKRSGANTTSNGGAPQSPGSQGATGEGHSNNSSSGDHGQRN---S 231

Query: 184 QFHGGNDHPHP-RGSFKHRNGNQHPRGDGSHHHNYGGRR-DQDRGNQDWNSHRNYSGRDA 241
           Q    NDHP   R SF++RNG  H RGDGSHHH+YGGRR DQDR NQDWN+HRN++    
Sbjct: 232 QSRSFNDHPQQQRNSFRNRNGGPHSRGDGSHHHSYGGRRNDQDRSNQDWNAHRNFNRDGG 291

Query: 242 HMQPQ-RVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPP 300
           H+QP   V  R  RHPPPPPPPP  +++ F+ PPPVRPF SP+GFP+  SP+YYVA  P 
Sbjct: 292 HVQPSPGVSARLMRHPPPPPPPPAAATT-FVAPPPVRPF-SPMGFPDMRSPLYYVAPHP- 348

Query: 301 EALRGVPFVA-PIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWV 359
           +++RGVP +A PIPPHAVFF + DPQLH++I+ QIDYYFSNENL+KD +LR+NMDDQGWV
Sbjct: 349 DSMRGVPIIAAPIPPHAVFFSS-DPQLHNKILCQIDYYFSNENLIKDLYLRKNMDDQGWV 407

Query: 360 PIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIM-PPGKFSSLPS 418
           PI+LIA FNKV LLTDNIQLILDA+R+S+VVE+QG+++RKRNDW+RWIM  P +F ++ S
Sbjct: 408 PIKLIASFNKVLLLTDNIQLILDAIRNSSVVEIQGEKVRKRNDWLRWIMTTPIQFPNVSS 467

Query: 419 PQSQGKSGIDMLSAQVQSISLDQKTLNHS---------------RSSSGDLSNLSPTCSS 463
           PQS  KSG DML+A VQ ISL++ T  HS               RS SGD ++ S   SS
Sbjct: 468 PQSGEKSGHDMLAANVQGISLEEMTAGHSNVRSQADVRTEAFLGRSLSGDFNSQSQLSSS 527

Query: 464 AGKDQ 468
            G D+
Sbjct: 528 KGIDE 532

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143562|emb|CBI22123.3| unnamed protein product [Vitis vinifera]

 Score =  415 bits (1066), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 261/471 (55%), Positives = 321/471 (68%), Gaps = 49/471 (10%)

Query: 36  AECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSV 95
           ++ GNGNAG KRP WN+ PSNG AE+ PVMGA SWPALSE+     +S KS+SDSLK   
Sbjct: 98  SDNGNGNAG-KRPAWNK-PSNGVAEVGPVMGASSWPALSESA---RASAKSASDSLKSPT 152

Query: 96  DGSSSS----SVLQGTAATNSSSHKQVSNNANPNSTTNHAASNRQRSMKRNN---SHSSS 148
           DGS S+      +QG+   +S SHKQV+NN  P+ST +HA   RQ+SMKR +     SS+
Sbjct: 153 DGSISTPPAQVHVQGSGNASSPSHKQVNNNPIPSSTPSHALPTRQKSMKRGDRSGGSSSA 212

Query: 149 NGGLPQPPASQGSVVEGRSNNPSPRDHT---------QKSGFGSQFHGGNDHPHPRGSFK 199
           N GLPQP A QG V+E   NN SPRDHT         Q+ GF  Q H GND+PH RGS++
Sbjct: 213 NAGLPQPAAPQGPVMEVPPNNSSPRDHTNRSIHPEGGQRGGFVPQSHSGNDYPHQRGSYR 272

Query: 200 HRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPP 259
             N   H RGDGSHHH YGGRRDQDR N DWN HRN++ R+ HMQP+ V + F R     
Sbjct: 273 KGNSAPHSRGDGSHHHGYGGRRDQDRVNHDWNPHRNFN-REPHMQPRVVARGFIR----- 326

Query: 260 PPPPPPSSSPFIPPPPVRPFGSPIGFPEFASP---VYYVAAAPPEALRGVPFVAPIPPHA 316
             PP  SS+ FI PP +RPFG+PI + E ASP   V YV A   + LR VPFVA   PH 
Sbjct: 327 --PPSHSSAQFIAPPHLRPFGNPILYQELASPVSQVVYVPAPHADPLRTVPFVA-PMPHP 383

Query: 317 VFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDN 376
           +FFP  D QLH+++V QIDYYFSNENL+KD +LRQNMD+QGWVP++LIAGF KV LLT+N
Sbjct: 384 MFFPPQDHQLHAKLVAQIDYYFSNENLIKDIYLRQNMDEQGWVPVKLIAGFKKVKLLTEN 443

Query: 377 IQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPG-KFSSLPSPQSQGKSGIDMLSAQVQ 435
           IQLIL+A+R+STVVEVQGD++RKR DWM+WIMPP  +FS L SPQS G S  D L+A+ Q
Sbjct: 444 IQLILEAVRTSTVVEVQGDKLRKRGDWMKWIMPPSVQFSPLSSPQSIGSSSYDTLAARFQ 503

Query: 436 SISLDQKTLNH---------------SRSSSGDLSNLSPTCSSAGKDQVSI 471
           +++L ++T N+               SRSSSGDL++ S   SS G  QV +
Sbjct: 504 NVTLGEQTTNYSTVRSEADVHVEAFSSRSSSGDLNSQSKPYSSEGPSQVGV 554

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434122|ref|XP_004134845.1| PREDICTED: uncharacterized protein LOC101218665 [Cucumis sativus]

 Score =  392 bits (1006), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 231/441 (52%), Positives = 292/441 (66%), Gaps = 43/441 (9%)

Query: 22  LAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSS 81
           LA    A A+  +       NAG+K P WN+  SNGA E+ PVMGA SWPALSE+TR ++
Sbjct: 86  LAVEEPAGAERSDSGNESLTNAGNK-PAWNKL-SNGAVEVGPVMGAVSWPALSESTRFTN 143

Query: 82  SSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAAS-------- 133
              KSS DS K S DGS   +  +GT    SS +K+ S +A+PN + N   +        
Sbjct: 144 ---KSSLDSPKDSADGSVGPAC-EGTGIQPSSPYKK-SISASPNPSPNPTLTPNPIPTPT 198

Query: 134 ------------NRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGF 181
                       +RQ+SMKR+ + SS +GG+ Q  A+  S ++   NNPS +DH Q+S F
Sbjct: 199 PTPAATPTLTPTHRQKSMKRSGAASSYSGGVSQQSATSVSTIDTTPNNPSSKDHMQRSSF 258

Query: 182 GSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDA 241
            SQ H  +++ H   SF+ R G+ +PRGD SHHHN+G RRDQDRGN DWN HRNY     
Sbjct: 259 ASQSHNDHNYQHQPNSFRSR-GSGYPRGDSSHHHNHGSRRDQDRGNHDWNPHRNYG---- 313

Query: 242 HMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPE 301
             QPQRVVQR+ R      PPPPPS++ FIP   +RP G P+ F EF  PV YVAA P E
Sbjct: 314 --QPQRVVQRYIR------PPPPPSNATFIPSS-MRPLGGPMPFHEFVPPVVYVAAPPQE 364

Query: 302 ALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPI 361
           ALR VPFVAP+PP+AVFFPA DPQL++RIV QI+YYFS+ENLVKDT+LR+NMD+ GWVPI
Sbjct: 365 ALRSVPFVAPMPPNAVFFPASDPQLYARIVHQIEYYFSDENLVKDTYLRRNMDEDGWVPI 424

Query: 362 RLIAGFNKVSLLTDNIQLILDALRS-STVVEVQGDRIRKRNDWMRWIMPPGK-FSSLPSP 419
            L+AGF  V  LTDNI +ILDALRS STVVEVQGD++R+RND+ +WIM P    S+  +P
Sbjct: 425 HLVAGFKMVRSLTDNIPVILDALRSTSTVVEVQGDKVRRRNDYSKWIMLPSTPTSNEVAP 484

Query: 420 QSQGKSGIDMLSAQVQSISLD 440
            S   S  D+L+A VQSI+L+
Sbjct: 485 LSPANSSQDLLAAGVQSITLE 505

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517138|ref|XP_004165603.1| PREDICTED: uncharacterized LOC101218665 [Cucumis sativus]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 231/453 (50%), Positives = 292/453 (64%), Gaps = 55/453 (12%)

Query: 22  LAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSS 81
           LA    A A+  +       NAG+K P WN+  SNGA E+ PVMGA SWPALSE+TR ++
Sbjct: 86  LAVEEPAGAERSDSGNESLTNAGNK-PAWNKL-SNGAVEVGPVMGAVSWPALSESTRFTN 143

Query: 82  SSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAAS-------- 133
              KSS DS K S DGS   +  +GT    SS +K+ S +A+PN + N   +        
Sbjct: 144 ---KSSLDSPKDSADGSVGPAC-EGTGIQPSSPYKK-SISASPNPSPNPTLTPNPIPTPT 198

Query: 134 ------------------------NRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNN 169
                                   +RQ+SMKR+ + SS +GG+ Q  A+  S ++   NN
Sbjct: 199 PTPAATPTPAATPTPAATPTLTPTHRQKSMKRSGAASSYSGGVSQQSATSVSTIDTTPNN 258

Query: 170 PSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQD 229
           PS +DH Q+S F SQ H  +++ H   SF+ R G+ +PRGD SHHHN+G RRDQDRGN D
Sbjct: 259 PSSKDHMQRSSFASQSHNDHNYQHQPNSFRSR-GSGYPRGDSSHHHNHGSRRDQDRGNHD 317

Query: 230 WNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFA 289
           WN HRNY       QPQRVVQR+ R      PPPPPS++ FIP   +RP G P+ F EF 
Sbjct: 318 WNPHRNYG------QPQRVVQRYIR------PPPPPSNATFIPSS-MRPLGGPMPFHEFV 364

Query: 290 SPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFL 349
            PV YVAA P EALR VPFVAP+PP+AVFFPA DPQL++RIV QI+YYFS+ENLVKDT+L
Sbjct: 365 PPVVYVAAPPQEALRSVPFVAPMPPNAVFFPASDPQLYARIVHQIEYYFSDENLVKDTYL 424

Query: 350 RQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRS-STVVEVQGDRIRKRNDWMRWIM 408
           R+NMD+ GWVPI L+AGF  V  LTDNI +ILDALRS STVVEVQGD++R+RND+ +WIM
Sbjct: 425 RRNMDEDGWVPIHLVAGFKMVRSLTDNIPVILDALRSTSTVVEVQGDKVRRRNDYSKWIM 484

Query: 409 PPGK-FSSLPSPQSQGKSGIDMLSAQVQSISLD 440
            P    S+  +P S   S  D+L+A VQSI+L+
Sbjct: 485 LPSTPTSNEVAPLSPANSSQDLLAAGVQSITLE 517

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357483893|ref|XP_003612233.1| ATP synthase subunit a chloroplastic [Medicago truncatula] gi|355513568|gb|AES95191.1| ATP synthase subunit a chloroplastic [Medicago truncatula]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 236/467 (50%), Positives = 297/467 (63%), Gaps = 68/467 (14%)

Query: 1   FGREPIALVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNG-AA 59
              E   +V++    STS      A   + + DNG E  NG  G KRP WNR   NG  +
Sbjct: 43  LSEESFPIVTAPVDDSTS------AEVISDNADNGGER-NGGTG-KRPAWNRSSGNGGVS 94

Query: 60  EMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSS-HKQV 118
           E++PVM AHSWPALS++ RGS+ S  S     KG +DGSS S   QG  +T SSS  +QV
Sbjct: 95  EVQPVMDAHSWPALSDSARGSTKSESS-----KGLLDGSSVSP-WQGMESTPSSSMQRQV 148

Query: 119 SNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEG------------- 165
            +N N     N+ A  RQ+S+K N+S++SSNGG  Q  A Q S+                
Sbjct: 149 GDNVN----VNNMAPTRQKSIKHNSSNASSNGGHTQQSAPQVSIAATGSHTSSSRDHTQS 204

Query: 166 --------RSNNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHH-N 216
                   R +  SPRDHTQ+SGF       +DHP  R SF+HRNG  H RGDGSHHH N
Sbjct: 205 PRDHTQSPRDHAQSPRDHTQRSGFVP-----SDHPQQRNSFRHRNGGPHQRGDGSHHHHN 259

Query: 217 YGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPV 276
           YG RRDQD     WNS RNY+GRD H+ P RV  R  R      P  PP+S+PFI PPP+
Sbjct: 260 YGNRRDQD-----WNSRRNYNGRDMHVPP-RVSPRIIR------PSLPPNSAPFIHPPPL 307

Query: 277 RPFGSPIGFPEFASPVYYVAAAPP--EALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQI 334
           RPFG  +GF E A+PV   A  PP  ++LRGVPFV P+P   +++  PDPQLHS+IV QI
Sbjct: 308 RPFGGHMGFHELAAPVVLFAGPPPPIDSLRGVPFVPPMP---LYYAGPDPQLHSKIVNQI 364

Query: 335 DYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG 394
           DYYFSNENLVKD FLR+NMD QGWVPI LIAGF KV  LTDNIQLI+DA+R+S+VVEVQG
Sbjct: 365 DYYFSNENLVKDIFLRKNMDAQGWVPITLIAGFKKVMDLTDNIQLIIDAIRTSSVVEVQG 424

Query: 395 DRIRKRNDWMRWIMP-PGKFSSLPSPQSQGKSGIDMLSAQVQSISLD 440
           D+IR++NDW +WIMP P +F ++ SP+   +   DML+ ++++I+L+
Sbjct: 425 DKIRRQNDWEKWIMPSPVQFPNVTSPEVLNQ---DMLAEKMRNIALE 468

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495348|ref|XP_003516540.1| PREDICTED: uncharacterized protein LOC100803372 [Glycine max]

 Score =  386 bits (992), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 245/476 (51%), Positives = 313/476 (65%), Gaps = 51/476 (10%)

Query: 4   EPIALVSSSSSQSTSVIELAAAAAAAAD-EDNGAECGNGNAGSKRPPWNRQPSNGAA--- 59
           EP+A   SSS++     +  +AA    D   + AE  +    + RP WN+   NGAA   
Sbjct: 39  EPVAAAPSSSTE-----DFPSAAVPVDDFSSSAAESSDNGGAALRPVWNKPSPNGAAAAA 93

Query: 60  -EMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATN-SSSHKQ 117
            ++ P M A+SWP  SE+TR ++ S     +S KG +DGSS     QG  +T+ SSS ++
Sbjct: 94  SDVRPEMDANSWPLPSESTRAATKS-----ESSKGLLDGSSVPQS-QGLGSTSFSSSQRE 147

Query: 118 VSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQ 177
           VS+NA  N+T N     RQ+SMK ++S++SSNGG  Q    Q S+    S N SP+DHTQ
Sbjct: 148 VSDNARTNNT-NSLVPARQKSMKHHSSNASSNGGHAQHSVPQVSIAATGSRNSSPKDHTQ 206

Query: 178 KSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYS 237
           +SGF S     NDHP  R SF++RNG QH RGDGSHHHNYG RRDQ+     WN++R++ 
Sbjct: 207 RSGFAS-----NDHPQQRNSFRNRNGGQHQRGDGSHHHNYGNRRDQE-----WNNNRSFG 256

Query: 238 GRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAA 297
            RD H+ P RV  RF R PPPPPP    +S+ F  P P+RPFGSPIGF E A P+ +VAA
Sbjct: 257 SRDTHVPP-RVAPRFIRPPPPPPP----NSAQFFHPSPMRPFGSPIGFHELAPPLVFVAA 311

Query: 298 APP--EALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDD 355
            PP  ++LRGVPFV P+P H +FF  PDPQLHS+IV Q+DYYFSNENLVKD FLRQNMDD
Sbjct: 312 PPPPPDSLRGVPFVPPMPHHPLFFTGPDPQLHSKIVNQVDYYFSNENLVKDAFLRQNMDD 371

Query: 356 QGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIM-PPGKFS 414
           QGWVPI+LIAGFNKV  LTDNIQ+ILDA+++S+VVEVQGD+IR++NDW RWIM PP +FS
Sbjct: 372 QGWVPIKLIAGFNKVMHLTDNIQVILDAIQTSSVVEVQGDKIRRQNDWRRWIMHPPVQFS 431

Query: 415 SLPSPQSQGKSGIDMLSAQVQSISLD------------QKTLNHSRSSSGDLSNLS 458
           +     + G    D L+ QVQ+I+L+            Q   +  RS+ GDL  LS
Sbjct: 432 NA---TTIGVLNPDKLAEQVQNIALETSNYDGAGGLDVQPDTSQHRSTFGDLQQLS 484

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356540834|ref|XP_003538889.1| PREDICTED: uncharacterized protein LOC100811819 [Glycine max]

 Score =  385 bits (989), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 237/446 (53%), Positives = 300/446 (67%), Gaps = 42/446 (9%)

Query: 4   EPIALVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGS-KRPPWNRQPSNGA---- 58
           EP+A V SSS++     +  +AAA   D  + A   + N G+ KRP WN+   NGA    
Sbjct: 39  EPVAAVPSSSTE-----DFPSAAAPVEDFSSSATESSDNGGAAKRPVWNKPSPNGAAAAA 93

Query: 59  -AEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQ 117
            +E+ P M A+SWP  SE+TR ++ S     +SLKG +DGSS   V Q     + SS   
Sbjct: 94  ASEVRPEMDANSWPLPSESTRAATKS-----ESLKGLLDGSS---VPQSQGLGSMSSSSP 145

Query: 118 VSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQ 177
                + N++TN     RQ+S K ++S++SSNGG  Q  ASQ S+    S N SP+DHTQ
Sbjct: 146 SQREVSDNASTNSVVPARQKSTKHHSSNASSNGGHMQHSASQVSIAATGSRNSSPKDHTQ 205

Query: 178 KSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYS 237
           +SGF S     +DHP  R SF++RNG QH RGDGSHHHNYG R DQD     WN++R + 
Sbjct: 206 RSGFAS-----HDHPQQRNSFRNRNGGQHQRGDGSHHHNYGNRHDQD-----WNNNRTFG 255

Query: 238 GRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAA 297
            RD H+ P RVV RF R      PPPPP+S+ F  P P+RPFGSPIGF E A  + +VAA
Sbjct: 256 SRDTHVPP-RVVPRFIR------PPPPPNSAQFFHPSPMRPFGSPIGFHELAPQLVFVAA 308

Query: 298 APP--EALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDD 355
            PP  ++LRGVPFV P+P H++FF  PDPQLH++IV Q+DYYFSNENLVKDTFLRQNMDD
Sbjct: 309 PPPPPDSLRGVPFVPPMPHHSLFFTGPDPQLHNKIVNQVDYYFSNENLVKDTFLRQNMDD 368

Query: 356 QGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIM-PPGKFS 414
           QGWVPI+LIAGFNKV  LTDNIQ+ILDA+R+S+VVEVQGD+IR+RNDW RWIM PP +FS
Sbjct: 369 QGWVPIKLIAGFNKVMHLTDNIQVILDAIRTSSVVEVQGDKIRRRNDWRRWIMHPPVQFS 428

Query: 415 SLPSPQSQGKSGIDMLSAQVQSISLD 440
           +     + G    DML+ QV +I+L+
Sbjct: 429 NA---TTIGVLNPDMLAEQVHNIALE 451

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434124|ref|XP_004134846.1| PREDICTED: uncharacterized protein LOC101218903 [Cucumis sativus]

 Score =  365 bits (936), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 222/426 (52%), Positives = 289/426 (67%), Gaps = 28/426 (6%)

Query: 34  NGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKG 93
           +G      NAG K+P WN+  +NG  E  PVMGA SWPALSE+ +G+  S+  S  SL  
Sbjct: 97  DGGNGSTANAG-KKPAWNKL-ANGT-EAGPVMGAVSWPALSESAKGTPKSSSDSLKSLG- 152

Query: 94  SVDGSSSSSVLQGTAATNSSSHKQVSNNA---NPNSTTNHAASNRQRSMKRNNSHSSSNG 150
             DGS+ +   QGT  ++S+S  +  NN    NP+ST  H  ++RQ+SM+RN S +S N 
Sbjct: 153 --DGSAGA---QGTGTSSSASSNKEGNNDVSPNPDSTLTHPITSRQKSMRRNGSSNSYNS 207

Query: 151 GLPQPPASQGSVVEGRSNNPSPRDHTQKSGF-GSQFHGGNDHPHPRGSFKHRNGNQHPRG 209
            LPQ  A    V++   NN SP+D TQ++ F  SQ H  + H  PR S++ R G  HPRG
Sbjct: 208 SLPQQSAPSSPVIDTAPNN-SPKDQTQRTTFVSSQSHSDHGHQQPRNSYRSRGGGSHPRG 266

Query: 210 DGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSP 269
           D SHHHNYG RRD DRGNQDWNS+RNY+      QP RVV RF R  PPPPP    +++ 
Sbjct: 267 DNSHHHNYGSRRDHDRGNQDWNSNRNYNA-----QPHRVVHRFIRPSPPPPP----NTTG 317

Query: 270 FIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSR 329
           +I  P +R  G P+ FP+FA PV Y+   PPEALRGVPFVAPI P+A+FF  PDPQL++ 
Sbjct: 318 YISSPTMRAIGGPLPFPDFAPPVVYIGPPPPEALRGVPFVAPISPNAMFFHGPDPQLYAM 377

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           IV+QI+YYFS ENL+KDTFLRQNM+++GWVP++LIA F+KV  LT+NIQ ILDAL+SSTV
Sbjct: 378 IVSQIEYYFSGENLIKDTFLRQNMNEEGWVPVKLIASFSKVQRLTENIQTILDALQSSTV 437

Query: 390 VEVQGDRIRKRNDWMRWIMPPGKFSSLP---SPQSQGKSGIDMLSAQVQSISLDQKTLNH 446
           VEV+GD +R+R+D+ RWI+ PG+  ++    SP S G S  DML+A V+ I+L+   +NH
Sbjct: 438 VEVKGDTVRRRHDYDRWIIRPGQVPNISGPLSPLSPGSSKQDMLAAGVKGIALEN--INH 495

Query: 447 SRSSSG 452
             S  G
Sbjct: 496 RVSEGG 501

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449517140|ref|XP_004165604.1| PREDICTED: uncharacterized LOC101218903 [Cucumis sativus]

 Score =  365 bits (936), Expect = 3e-98,   Method: Compositional matrix adjust.
 Identities = 222/426 (52%), Positives = 289/426 (67%), Gaps = 28/426 (6%)

Query: 34  NGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSSSTKSSSDSLKG 93
           +G      NAG K+P WN+  +NG  E  PVMGA SWPALSE+ +G+  S+  S  SL  
Sbjct: 97  DGGNGSTANAG-KKPAWNKL-ANGT-EAGPVMGAVSWPALSESAKGTPKSSSDSLKSLG- 152

Query: 94  SVDGSSSSSVLQGTAATNSSSHKQVSNNA---NPNSTTNHAASNRQRSMKRNNSHSSSNG 150
             DGS+ +   QGT  ++S+S  +  NN    NP+ST  H  ++RQ+SM+RN S +S N 
Sbjct: 153 --DGSAGA---QGTGTSSSASSNKEGNNDVSPNPDSTLTHPITSRQKSMRRNGSSNSYNS 207

Query: 151 GLPQPPASQGSVVEGRSNNPSPRDHTQKSGF-GSQFHGGNDHPHPRGSFKHRNGNQHPRG 209
            LPQ  A    V++   NN SP+D TQ++ F  SQ H  + H  PR S++ R G  HPRG
Sbjct: 208 SLPQQSAPSSPVIDTAPNN-SPKDQTQRTTFVSSQSHSDHGHQQPRNSYRSRGGGSHPRG 266

Query: 210 DGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQRVVQRFTRHPPPPPPPPPPSSSP 269
           D SHHHNYG RRD DRGNQDWNS+RNY+      QP RVV RF R  PPPPP    +++ 
Sbjct: 267 DNSHHHNYGSRRDHDRGNQDWNSNRNYNA-----QPHRVVHRFIRPSPPPPP----NTTG 317

Query: 270 FIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPHAVFFPAPDPQLHSR 329
           +I  P +R  G P+ FP+FA PV Y+   PPEALRGVPFVAPI P+A+FF  PDPQL++ 
Sbjct: 318 YISSPTMRAIGGPLPFPDFAPPVVYIGPPPPEALRGVPFVAPISPNAMFFHGPDPQLYAM 377

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           IV+QI+YYFS ENL+KDTFLRQNM+++GWVP++LIA F+KV  LT+NIQ ILDAL+SSTV
Sbjct: 378 IVSQIEYYFSGENLIKDTFLRQNMNEEGWVPVKLIASFSKVQRLTENIQTILDALQSSTV 437

Query: 390 VEVQGDRIRKRNDWMRWIMPPGKFSSLP---SPQSQGKSGIDMLSAQVQSISLDQKTLNH 446
           VEV+GD +R+R+D+ RWI+ PG+  ++    SP S G S  DML+A V+ I+L+   +NH
Sbjct: 438 VEVKGDTVRRRHDYDRWIIRPGQVPNISGPLSPLSPGSSKQDMLAAGVKGIALEN--INH 495

Query: 447 SRSSSG 452
             S  G
Sbjct: 496 RVSEGG 501

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356502094|ref|XP_003519856.1| PREDICTED: uncharacterized protein LOC100819612 [Glycine max]

 Score =  335 bits (858), Expect = 4e-89,   Method: Compositional matrix adjust.
 Identities = 223/465 (47%), Positives = 287/465 (61%), Gaps = 40/465 (8%)

Query: 23  AAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMGAHSWPALSETTRGSSS 82
           A  +    D DNG   GN     KRP WN+ PSN A+    V+GA SWP  +E+ R  + 
Sbjct: 46  AVNSPPTEDSDNGG--GNNVITGKRPAWNK-PSNAASSS--VIGADSWPLPAESARAPTK 100

Query: 83  STKSSS---DSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAASNRQRSM 139
           S   S    +  K S D SS    LQG+ +   S  + V +NAN +   N+     Q+S 
Sbjct: 101 SPSPSPSPSEMTKTSTDISSLPPPLQGSGSVTPSPQRNVRDNANAD---NNTVQTHQKSF 157

Query: 140 KRNNSHSSSNGGL--PQPPASQGSVVEGRSNN--PSPRDHTQKSGFGSQFHGGNDHPHPR 195
           KR+NS++SSNGG   PQ    QG +    S+N   SP++H  ++GF       NDH   R
Sbjct: 158 KRSNSNTSSNGGHHPPQMSGPQGPIAPAGSHNYNSSPKEHQPRAGFFP-----NDHLPQR 212

Query: 196 GSFKHRNGNQ-HPRGDGSHHHNYGGRRDQD-RGNQDWNSHRNYSGRDAHMQPQRVVQRFT 253
            SF++RNG   H RGDG HHHNYGGRRDQD RGNQDWN+HR+++GRD  M P R   RF 
Sbjct: 213 NSFRYRNGGGPHQRGDGHHHHNYGGRRDQDHRGNQDWNNHRSFNGRDNFMSP-RFGPRFI 271

Query: 254 RHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIP 313
           R P PP       +  F PPPP+ P+G  IGFPE    + YV   P E++RGVPFV+PIP
Sbjct: 272 RPPLPPN-----PAPLFPPPPPLHPYGGSIGFPELPPQMIYVPPPPLESMRGVPFVSPIP 326

Query: 314 PHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLL 373
           P+A+FF   D QLH++IV QIDYYFSNENLVKD +LR+NMDDQGWV I LIAGF KV  L
Sbjct: 327 PNAMFFQPSDNQLHTKIVNQIDYYFSNENLVKDIYLRRNMDDQGWVTINLIAGFKKVKYL 386

Query: 374 TDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWIMPPGKFSSLPSPQSQGKSGIDMLSAQ 433
           T+NIQ++LDA+R+S+VVEVQGD+IR+RNDW RWIMP G+      P  +G   +  L+ +
Sbjct: 387 TENIQIVLDAVRTSSVVEVQGDKIRRRNDWRRWIMPGGQV-----PNVRGSQTVGQLAER 441

Query: 434 VQSISL------DQKTLNHSRSS-SGDLSNLSPTCSSAGKDQVSI 471
           VQ+I+L      D   L+ S++   GDL++     +S G  QV I
Sbjct: 442 VQNITLERTNNNDAGVLDVSQNRPFGDLNSQYLHSTSEGTAQVGI 486

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	471
TAIR|locus:2125334	523	LARP1c "La related protein 1c"	0.494	0.445	0.412	8.6e-73
TAIR|locus:2156912	453	LARP1b "AT5G66100" [Arabidopsi	0.664	0.690	0.345	1.8e-46
UNIPROTKB|G3V0E9	358	LARP1B "La-related protein 1B"	0.220	0.290	0.466	6.7e-17
WB|WBGene00020097	1150	larp-1 [Caenorhabditis elegans	0.244	0.1	0.447	9.2e-17
POMBASE|SPAC1527.03	475	SPAC1527.03 "RNA-binding prote	0.233	0.231	0.316	2.4e-16
UNIPROTKB|G3XAJ5	522	LARP1B "La-related protein 1B"	0.220	0.199	0.466	2.9e-16
UNIPROTKB|Q659C4	914	LARP1B "La-related protein 1B"	0.220	0.113	0.466	8.2e-16
UNIPROTKB|E1BVY8	173	LOC420093 "Uncharacterized pro	0.174	0.473	0.441	1.1e-12
ASPGD|ASPL0000062948	734	AN1288 [Emericella nidulans (t	0.254	0.163	0.348	1.4e-12
UNIPROTKB|F1P339	927	LARP1 "Uncharacterized protein	0.178	0.090	0.464	2.1e-12

TAIR|locus:2125334 LARP1c "La related protein 1c" [Arabidopsis thaliana (taxid:3702)]

 Score = 449 (163.1 bits), Expect = 8.6e-73, Sum P(2) = 8.6e-73
 Identities = 106/257 (41%), Positives = 137/257 (53%)

Query:     4 EPIALVXXXXXXXXXVIELXXXXXXXXDEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEP 63
             EPIA V         +           DE + A  G  NAG K+P W R PSNGA+E+ P
Sbjct:    75 EPIASVSVAAPTAAVL----TVEAAAGDEKSEASGGQDNAG-KKPVWKR-PSNGASEVGP 128

Query:    64 VMGAHSWPALSETTRGXXXXXXXXXXXXX----XXXXXXXXXXXXQGTAATNSSSHKQVS 119
             VMGA SWPALSETT+                              QG A  +  + KQ +
Sbjct:   129 VMGASSWPALSETTKAPSNKSSSDSLKSLGDVPSSSSASSSVPVTQGIANASVPAPKQ-A 187

Query:   120 NNANPNSTTNHAASNRQRSMK-RNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQK 178
               ANPN T NH+   RQRS K RN +  S+NG + QP A QGS  E  S+NPSPR   QK
Sbjct:   188 GRANPNPTPNHS---RQRSFKQRNGASGSANGTVSQPSA-QGSFTELPSHNPSPRGQNQK 243

Query:   179 SGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSG 238
             +GF SQ HGG ++P  R S++++NGN        HH ++GGRR+Q+ GNQ+W   R+++G
Sbjct:   244 NGFASQNHGGTENPSQRDSYRNQNGN--------HHQSHGGRRNQEHGNQNWTFQRSFNG 295

Query:   239 RDAHMQPQRVVQRFTRH 255
             R+ + Q QR    F RH
Sbjct:   296 REGNAQSQRGTPAFVRH 312

GO:0009507 "chloroplast" evidence=ISM

GO:0048523 "negative regulation of cellular process" evidence=RCA

GO:0005737 "cytoplasm" evidence=IDA

GO:0010150 "leaf senescence" evidence=IMP

TAIR|locus:2156912 LARP1b "AT5G66100" [Arabidopsis thaliana (taxid:3702)]

 Score = 487 (176.5 bits), Expect = 1.8e-46, P = 1.8e-46
 Identities = 116/336 (34%), Positives = 184/336 (54%)

Query:   108 AATNSSSHKQVSNNANPNSTTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRS 167
             A +N+S++    ++ +  S+ N A +N QR   R N+++SS+       ++  +V     
Sbjct:   137 ATSNTSTNANAGSSVSATSSENSAVNNSQRKPFRRNNNTSSS-------STSSNVSNAAP 189

Query:   168 NNPSPRDHTQKSGFGSQFHGGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGN 227
              N   ++H+Q+ G GS F  GN     R S ++RN + +PRG+G HH   G RR+ + GN
Sbjct:   190 LNTRDQNHSQRGG-GS-FGSGNF----RNSQRNRNSSSYPRGEGLHH---GNRRNYEHGN 240

Query:   228 QDWNSHRNYSGRDAHMQPQRVVQRFTRHXXXXXXXXXXXXXXXXXXXXXXXXXXXIGFPE 287
             Q   SHRNYSGRD H+QPQR V                                 I +P+
Sbjct:   241 QSGFSHRNYSGRDMHLQPQRGVGMIRPQMLMGPPSFPASSAQYMAAPQLGSYGGPIIYPD 300

Query:   288 FASXXXXXXXXXXEALRGVPFVAPIPPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDT 347
             +A               G+  V P P   ++F   D  L+++I+TQ++YYFS +NL +D 
Sbjct:   301 YAQHVFMPHPSPDPM--GL--VGPFPLQPMYFRNFDAILYNKILTQVEYYFSADNLSRDE 356

Query:   348 FLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRKRNDWMRWI 407
              LR  M+D+GWVP+R+IA F +++ LT+NIQ IL+ALRSS VVE+QG+ +R+R DW +++
Sbjct:   357 HLRDQMNDEGWVPVRVIAAFRRLAELTNNIQTILEALRSSEVVEIQGETLRRRGDWDKYL 416

Query:   408 MPPGKFSSLPSPQSQGKSGIDMLSAQVQSISLDQKT 443
             +P     S P+    G S    L +Q++S++L +++
Sbjct:   417 LPREPSRSGPAA---GASNNASLVSQIESMTLSERS 449

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0010150 "leaf senescence" evidence=IMP

UNIPROTKB|G3V0E9 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 227 (85.0 bits), Expect = 6.7e-17, P = 6.7e-17
 Identities = 49/105 (46%), Positives = 69/105 (65%)

Query:   319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQ 378
             +P  +  L   I  QI+YYFS ENL +D FLR  MD+QG++PI LIAGF +V  LT N+ 
Sbjct:   208 YPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLN 267

Query:   379 LILDALRSSTVVEVQGDRIRKRNDWMRWIMP-PGKFSSLPSPQSQ 422
             LIL+AL+ ST VE+  +++RK+ +  +W +P P   S  P+  SQ
Sbjct:   268 LILEALKDSTEVEIVDEKMRKKIEPEKWPIPGPPPRSVPPTDFSQ 312

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

WB|WBGene00020097 larp-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 210 (79.0 bits), Expect = 9.2e-17, Sum P(2) = 9.2e-17
 Identities = 55/123 (44%), Positives = 73/123 (59%)

Query:   306 VPFVAPI--PPHAVFFPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRL 363
             +PF API  PP A   P  D  L   +  QI+YYFS ENL KD FLR+ M  +G++P+ L
Sbjct:   559 IPF-APIYNPPTAPR-PVTDDTLKEYVRKQIEYYFSEENLQKDFFLRRKMGPEGYLPVAL 616

Query:   364 IAGFNKVSLLTDNIQLILDALRSSTVVEVQGD--RIRKRNDWMRW-IMPP-GKFSSLPSP 419
             IA F +V  LT++  LIL+AL+ ST V++  D  +IR   +   W +MP      SLP P
Sbjct:   617 IASFPRVRSLTEDYSLILEALKDSTKVDMSPDGLQIRAPVNPTIWPLMPTVSGADSLPGP 676

Query:   420 QSQ 422
              SQ
Sbjct:   677 SSQ 679

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040018 "positive regulation of multicellular organism growth" evidence=IMP

GO:0002009 "morphogenesis of an epithelium" evidence=IMP

GO:0010171 "body morphogenesis" evidence=IMP

GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA

GO:0034046 "poly(G) RNA binding" evidence=IDA

GO:0008266 "poly(U) RNA binding" evidence=IDA

POMBASE|SPAC1527.03 SPAC1527.03 "RNA-binding protein (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 202 (76.2 bits), Expect = 2.4e-16, Sum P(2) = 2.4e-16
 Identities = 38/120 (31%), Positives = 72/120 (60%)

Query:   330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
             + +Q++YYFS ENL KD FLR++MDD+G+VP+  +A FN++   + ++ L+  A ++S +
Sbjct:   329 LTSQLEYYFSIENLCKDMFLRKHMDDEGYVPLAFLASFNRIKSFSTDLNLLHAACKASDI 388

Query:   390 VEVQGD-------RIRKRNDWMRWIMPPG---KFSSLPSPQSQGKSGIDMLSAQVQSISL 439
             ++V  D       ++R++  W  WI+P     KF     PQ    S +  L++ + ++++
Sbjct:   389 IDVAIDLQSPMSIKVRRKETWSPWILPSESRLKFEMAKYPQINSSSSMSPLASSISNLTI 448

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003723 "RNA binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005829 "cytosol" evidence=IDA

GO:0005844 "polysome" evidence=ISO

GO:0006412 "translation" evidence=ISO

UNIPROTKB|G3XAJ5 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 227 (85.0 bits), Expect = 2.9e-16, P = 2.9e-16
 Identities = 49/105 (46%), Positives = 69/105 (65%)

Query:   319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQ 378
             +P  +  L   I  QI+YYFS ENL +D FLR  MD+QG++PI LIAGF +V  LT N+ 
Sbjct:   208 YPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLN 267

Query:   379 LILDALRSSTVVEVQGDRIRKRNDWMRWIMP-PGKFSSLPSPQSQ 422
             LIL+AL+ ST VE+  +++RK+ +  +W +P P   S  P+  SQ
Sbjct:   268 LILEALKDSTEVEIVDEKMRKKIEPEKWPIPGPPPRSVPPTDFSQ 312

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|Q659C4 LARP1B "La-related protein 1B" [Homo sapiens (taxid:9606)]

 Score = 227 (85.0 bits), Expect = 8.2e-16, P = 8.2e-16
 Identities = 49/105 (46%), Positives = 69/105 (65%)

Query:   319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQ 378
             +P  +  L   I  QI+YYFS ENL +D FLR  MD+QG++PI LIAGF +V  LT N+ 
Sbjct:   208 YPVEEALLKEYIKRQIEYYFSVENLERDFFLRGKMDEQGFLPISLIAGFQRVQALTTNLN 267

Query:   379 LILDALRSSTVVEVQGDRIRKRNDWMRWIMP-PGKFSSLPSPQSQ 422
             LIL+AL+ ST VE+  +++RK+ +  +W +P P   S  P+  SQ
Sbjct:   268 LILEALKDSTEVEIVDEKMRKKIEPEKWPIPGPPPRSVPPTDFSQ 312

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E1BVY8 LOC420093 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 174 (66.3 bits), Expect = 1.1e-12, P = 1.1e-12
 Identities = 38/86 (44%), Positives = 58/86 (67%)

Query:   319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQ--GWVPIRLIAGFNKVSLLTDN 376
             +  PDPQL  RIV+Q+++Y S+ENL KD FL +++     G+V I+L+  F KV  LT +
Sbjct:    70 YSIPDPQLIRRIVSQVEFYLSDENLAKDAFLLKHVQKNKLGFVSIKLLTSFKKVKYLTRD 129

Query:   377 IQLILDALRSSTVVEV--QGDRIRKR 400
              +L L ALR S ++EV  +G ++R+R
Sbjct:   130 WRLTLYALRFSKLLEVNQEGTKVRRR 155

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

ASPGD|ASPL0000062948 AN1288 [Emericella nidulans (taxid:162425)]

 Score = 181 (68.8 bits), Expect = 1.4e-12, Sum P(3) = 1.4e-12
 Identities = 45/129 (34%), Positives = 70/129 (54%)

Query:   302 ALRGVPFVAPIPPHAV-FFPAPDP-QLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWV 359
             ++ G   V P P  A+ F P  +   +   I  Q+DYYFS +NL KD +LR++MD QG+V
Sbjct:   546 SMYGYQPVQPGPMSAMPFQPYMESFSVIGMITLQLDYYFSVDNLCKDIYLRKHMDSQGFV 605

Query:   360 PIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG-----DRIRKRNDWMRWIMPPGKFS 414
              + +IA F +V  L+++ +L+  A R     E        DR+R R  W +W++P  +  
Sbjct:   606 ALNVIANFKRVKQLSEDFELLRHASRQLKAAEYHAGEDGIDRLRPRERWEQWVLPIEQRD 665

Query:   415 SLPSPQSQG 423
               PS Q+ G
Sbjct:   666 --PSAQNAG 672

GO:0008150 "biological_process" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

UNIPROTKB|F1P339 LARP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 197 (74.4 bits), Expect = 2.1e-12, P = 2.1e-12
 Identities = 39/84 (46%), Positives = 56/84 (66%)

Query:   326 LHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALR 385
             L   I  QI+YYFS +NL +D FLR+ MD  G++PI LIA F++V  LT +I LI+ AL+
Sbjct:   242 LKDYIKRQIEYYFSVDNLERDFFLRRKMDSDGFLPITLIASFHRVQALTTDISLIIKALK 301

Query:   386 SSTVVEVQGDRIRKRNDWMRWIMP 409
              S VVE+   +IR++    +W +P
Sbjct:   302 DSKVVEIVDQKIRRKEQPEKWALP 325

GO:0016239 "positive regulation of macroautophagy" 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	471
cd07323	75	cd07323, LAM, LA motif RNA-binding domain	9e-35
cd08034	73	cd08034, LARP_1_2, La RNA-binding domain proteins	7e-27
smart00715	80	smart00715, LA, Domain in the RNA-binding Lupus La	1e-25
pfam05383	59	pfam05383, La, La domain	4e-25
cd08038	73	cd08038, LARP_2, La RNA-binding domain of La-relat	2e-24
cd08031	75	cd08031, LARP_4_5_like, La RNA-binding domain of p	7e-22
cd08037	73	cd08037, LARP_1, La RNA-binding domain of La-relat	2e-21
cd08033	77	cd08033, LARP_6, La RNA-binding domain of La-relat	6e-20
cd08028	82	cd08028, LARP_3, La RNA-binding domain of La-relat	1e-16
cd08032	82	cd08032, LARP_7, La RNA-binding domain of La-relat	3e-15
cd08035	75	cd08035, LARP_4, La RNA-binding domain of La-relat	4e-12
cd08029	76	cd08029, LA_like_fungal, La-motif domain of fungal	5e-11
cd08030	90	cd08030, LA_like_plant, La-motif domain of plant p	3e-10
cd08036	75	cd08036, LARP_5, La RNA-binding domain of La-relat	3e-08
COG5193	438	COG5193, LHP1, La protein, small RNA-binding pol I	6e-05
PRK14950	585	PRK14950, PRK14950, DNA polymerase III subunits ga	2e-04
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	0.001
PRK12678	672	PRK12678, PRK12678, transcription termination fact	0.002
pfam07174	297	pfam07174, FAP, Fibronectin-attachment protein (FA	0.002
COG5178	2365	COG5178, PRP8, U5 snRNP spliceosome subunit [RNA p	0.002
pfam04652	315	pfam04652, DUF605, Vta1 like	0.002
PRK08581	619	PRK08581, PRK08581, N-acetylmuramoyl-L-alanine ami	0.002

>gnl|CDD|153396 cd07323, LAM, LA motif RNA-binding domain

 Score =  124 bits (313), Expect = 9e-35
 Identities = 41/75 (54%), Positives = 56/75 (74%), Gaps = 2/75 (2%)

Query: 327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRS 386
             +I  Q++YYFS+ENL KD FLR  MDD GWVP+ L+A FN+V  LT +++LIL+ALR 
Sbjct: 1   LEKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRD 60

Query: 387 STVVEVQGD--RIRK 399
           S+VVEV  D  ++R+
Sbjct: 61  SSVVEVSEDGTKVRR 75

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153403 cd08034, LARP_1_2, La RNA-binding domain proteins similar to La-related proteins 1 and 2

 Score =  102 bits (256), Expect = 7e-27
 Identities = 37/70 (52%), Positives = 53/70 (75%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           I  QI+YYFS +NL KD FLR+ MD +G++PI LIA F++V  LT ++ LIL+AL+ STV
Sbjct: 4   IKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTV 63

Query: 390 VEVQGDRIRK 399
           VE+  +++R 
Sbjct: 64  VELVDEKVRC 73

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|128955 smart00715, LA, Domain in the RNA-binding Lupus La protein; unknown function

 Score = 99.6 bits (249), Expect = 1e-25
 Identities = 36/74 (48%), Positives = 52/74 (70%), Gaps = 1/74 (1%)

Query: 329 RIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS 387
           +I  Q++YYFS+ENL +D FLR+ MD + G+VPI  IA F +V  LT ++ LI++ALRSS
Sbjct: 6   KIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSS 65

Query: 388 TVVEVQGDRIRKRN 401
             +EV  D ++ R 
Sbjct: 66  PKLEVSEDGLKVRR 79

Length = 80

>gnl|CDD|203243 pfam05383, La, La domain

 Score = 97.2 bits (243), Expect = 4e-25
 Identities = 32/59 (54%), Positives = 44/59 (74%), Gaps = 1/59 (1%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS 387
           I  Q++YYFS+ENL +D FLR+ MD D G+VPI  IA F ++  LT ++ LI++ALRSS
Sbjct: 1   IKKQVEYYFSDENLPRDKFLRKQMDKDPGYVPISTIASFKRIKKLTTDVNLIVEALRSS 59

This presumed domain is found at the N-terminus of La RNA-binding proteins as well as other proteins. The function of this region is uncertain. Length = 59

>gnl|CDD|153407 cd08038, LARP_2, La RNA-binding domain of La-related protein 2

 Score = 96.2 bits (239), Expect = 2e-24
 Identities = 40/70 (57%), Positives = 52/70 (74%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           I  QI+YYFS ENL +D FLR+ MD QG++PI LIAGF +V  LT N+ LIL+AL+ ST 
Sbjct: 4   IKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTE 63

Query: 390 VEVQGDRIRK 399
           VE+   +IR+
Sbjct: 64  VEIVDQKIRR 73

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153400 cd08031, LARP_4_5_like, La RNA-binding domain of proteins similar to La-related proteins 4 and 5

 Score = 89.0 bits (221), Expect = 7e-22
 Identities = 33/69 (47%), Positives = 46/69 (66%), Gaps = 2/69 (2%)

Query: 332 TQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVE 391
            Q++YYFS ENL  D +L   MD   +VPI  IA FNK+  LT +I LI++ALR S  V+
Sbjct: 6   RQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQ 65

Query: 392 V--QGDRIR 398
           V  +G+++R
Sbjct: 66  VDEKGEKVR 74

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153406 cd08037, LARP_1, La RNA-binding domain of La-related protein 1

 Score = 87.7 bits (217), Expect = 2e-21
 Identities = 35/70 (50%), Positives = 51/70 (72%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
           I  QI+YYFS +NL +D FLR+ MD+ G++P+ LIA F++V  LT +I LI+ AL+ S V
Sbjct: 4   IKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKV 63

Query: 390 VEVQGDRIRK 399
           VE+   +IR+
Sbjct: 64  VEIIDMKIRR 73

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 73

>gnl|CDD|153402 cd08033, LARP_6, La RNA-binding domain of La-related protein 6

 Score = 83.5 bits (207), Expect = 6e-20
 Identities = 33/75 (44%), Positives = 52/75 (69%), Gaps = 2/75 (2%)

Query: 328 SRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALR 385
            +IV Q++YYFS+ENL+KD FL +++  + +G+VPI+LIA F KV  LT + +++  ALR
Sbjct: 2   QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALR 61

Query: 386 SSTVVEVQGDRIRKR 400
            S+ + V  D  + R
Sbjct: 62  RSSKLVVSEDGKKVR 76

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 77

>gnl|CDD|153397 cd08028, LARP_3, La RNA-binding domain of La-related protein 3

 Score = 74.3 bits (183), Expect = 1e-16
 Identities = 28/80 (35%), Positives = 51/80 (63%), Gaps = 3/80 (3%)

Query: 324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNM-DDQGWVPIRLIAGFNKVSLLTDNIQLILD 382
             L  +I+ QI+YYF + NL +D FL++ + +D GWVP+ ++  FN++  L+ + ++I  
Sbjct: 2   DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAK 61

Query: 383 ALRSST--VVEVQGDRIRKR 400
           AL+ S   ++EV  D+ + R
Sbjct: 62  ALKKSKSGLIEVSEDKTKIR 81

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B). Length = 82

>gnl|CDD|153401 cd08032, LARP_7, La RNA-binding domain of La-related protein 7

 Score = 70.4 bits (172), Expect = 3e-15
 Identities = 33/79 (41%), Positives = 53/79 (67%), Gaps = 4/79 (5%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQ--GWVPIRLIAGFNKVSLLTDNIQLILD 382
           QL + I  Q+D++F + NL KD FLR+ ++    G++ I L+  FNK+  LT + +LI  
Sbjct: 4   QLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIAR 63

Query: 383 ALRSSTVVEV--QGDRIRK 399
           AL++S+VVE+  +G RIR+
Sbjct: 64  ALKNSSVVELNLEGTRIRR 82

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation. Length = 82

>gnl|CDD|153404 cd08035, LARP_4, La RNA-binding domain of La-related protein 4

 Score = 61.2 bits (148), Expect = 4e-12
 Identities = 29/68 (42%), Positives = 43/68 (63%), Gaps = 2/68 (2%)

Query: 333 QIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEV 392
           Q+++ FS ENL KD +L   MD   +VPI  +A    +  LT ++ LILD LRSS +V+V
Sbjct: 7   QLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQV 66

Query: 393 --QGDRIR 398
              G+++R
Sbjct: 67  DETGEKVR 74

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|153398 cd08029, LA_like_fungal, La-motif domain of fungal proteins similar to the La autoantigen

 Score = 58.1 bits (141), Expect = 5e-11
 Identities = 25/70 (35%), Positives = 40/70 (57%), Gaps = 3/70 (4%)

Query: 328 SRIVTQIDYYFSNENLVKDTFLRQ--NMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALR 385
             I  Q+++YFS+ NL  D FL       + GWVPI+ IA F ++      ++ +++ALR
Sbjct: 2   EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQ-PLEAVVEALR 60

Query: 386 SSTVVEVQGD 395
            S ++EV  D
Sbjct: 61  ESELLEVSED 70

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 76

>gnl|CDD|153399 cd08030, LA_like_plant, La-motif domain of plant proteins similar to the La autoantigen

 Score = 56.2 bits (136), Expect = 3e-10
 Identities = 27/87 (31%), Positives = 51/87 (58%), Gaps = 16/87 (18%)

Query: 329 RIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKV-SLL-----------T 374
           +++ Q+++YFS+ NL +D FL + +  D  G V + LI  F+++ SLL            
Sbjct: 4   KVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPE 63

Query: 375 DNIQLILDALRSSTVVEV--QGDRIRK 399
           D ++ + +ALR+ST+++V   G R+ +
Sbjct: 64  DTLKAVAEALRTSTLLKVSEDGKRVGR 90

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 90

>gnl|CDD|153405 cd08036, LARP_5, La RNA-binding domain of La-related protein 5

 Score = 50.4 bits (120), Expect = 3e-08
 Identities = 23/67 (34%), Positives = 41/67 (61%), Gaps = 2/67 (2%)

Query: 334 IDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEV- 392
           +++  S ENL  D +L   MD   +VPI  +A  + +  L+ ++ LI+D LRS  +V+V 
Sbjct: 8   LEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVD 67

Query: 393 -QGDRIR 398
            +G+++R
Sbjct: 68  EKGEKVR 74

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes. Length = 75

>gnl|CDD|227520 COG5193, LHP1, La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

 Score = 45.0 bits (106), Expect = 6e-05
 Identities = 23/86 (26%), Positives = 33/86 (38%)

Query: 330 IVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV 389
              QI+YYFS ENL  D FLR+     G++P+  I  F +      +  LIL A++    
Sbjct: 274 KKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEVVQ 333

Query: 390 VEVQGDRIRKRNDWMRWIMPPGKFSS 415
            +                    K  S
Sbjct: 334 NKATNHLEIALGSIEDAQKNEAKDFS 359

Length = 438

>gnl|CDD|237864 PRK14950, PRK14950, DNA polymerase III subunits gamma and tau; Provisional

 Score = 43.6 bits (103), Expect = 2e-04
 Identities = 18/61 (29%), Positives = 22/61 (36%), Gaps = 2/61 (3%)

Query: 244 QPQRVVQRFTRHPPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEAL 303
            P +   R T    PPP PP P + P    P   P  +    P    P Y   A P E  
Sbjct: 397 IPPKEPVRET--ATPPPVPPRPVAPPVPHTPESAPKLTRAAIPVDEKPKYTPPAPPKEEE 454

Query: 304 R 304
           +
Sbjct: 455 K 455

Length = 585

>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein

 Score = 41.1 bits (96), Expect = 0.001
 Identities = 24/99 (24%), Positives = 44/99 (44%), Gaps = 5/99 (5%)

Query: 74  SETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAA---TNSSSHKQVSNNANPNSTTNH 130
           S +T GS  +T +SS +  GS+   SS S          ++  SH   +N + P+S+ + 
Sbjct: 304 SSSTNGSKETTSNSSSAAAGSIGSKSSKSAKHSNRNKSNSSPKSHSS-ANGSVPSSSVSD 362

Query: 131 AASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNN 169
             S ++R+ K ++    S        ++ G+V      N
Sbjct: 363 NESKQKRASKSSSGARDSKKDAS-GMSANGTVENCIPEN 400

This entry is a highly conserved protein present in eukaryotes. Length = 680

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 38/244 (15%), Positives = 76/244 (31%), Gaps = 13/244 (5%)

Query: 7   ALVSSSSSQSTSVIELAAAAAAAADEDNGAECGNGNAGSKRPPWNRQPSNGAAEMEPVMG 66
           A  +++ +   +    AA AAAAA +          A ++  P  R  +  AAE      
Sbjct: 64  AAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAAS--A 121

Query: 67  AHSWPALSETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNS 126
             +  A     RG ++   ++  + +G    ++ +              ++       + 
Sbjct: 122 PEAAQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEEEERDER---RRRGDR 178

Query: 127 TTNHAASNRQRSMKRNNSHSSSNGGLPQPPASQGSVVEGRSNNPSPRDHTQKSGFGSQFH 186
               A + R    +R       +    +    QG   + R      RD   + G   +  
Sbjct: 179 EDRQAEAERGERGRREERGRDGDDRDRRDRREQG---DRREERGR-RDGGDRRGRRRRRD 234

Query: 187 GGNDHPHPRGSFKHRNGNQHPRGDGSHHHNYGGRRDQDRGNQDWNSHRNYSGRDAHMQPQ 246
             +     RG     +       DG       GRR +DR  +        + R+  ++  
Sbjct: 235 RRDA----RGDDNREDRGDRDGDDGEGRGGRRGRRFRDRDRRGRRGGDGGNEREPELRED 290

Query: 247 RVVQ 250
            V+ 
Sbjct: 291 DVLV 294

Length = 672

>gnl|CDD|219321 pfam07174, FAP, Fibronectin-attachment protein (FAP)

 Score = 39.9 bits (93), Expect = 0.002
 Identities = 25/69 (36%), Positives = 32/69 (46%), Gaps = 4/69 (5%)

Query: 256 PPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPH 315
           PPPPP     + +P  PPPP  P   P   P+  +     A  PP A    P   P+ P+
Sbjct: 44  PPPPPSTAAAAPAPAAPPPPPPPAAPPAPQPDDPNA----APPPPPADPNAPPPPPVDPN 99

Query: 316 AVFFPAPDP 324
           A   PAP+P
Sbjct: 100 APPPPAPEP 108

This family contains bacterial fibronectin-attachment proteins (FAP). Family members are rich in alanine and proline, are approximately 300 long, and seem to be restricted to mycobacteria. These proteins contain a fibronectin-binding motif that allows mycobacteria to bind to fibronectin in the extracellular matrix. Length = 297

>gnl|CDD|227505 COG5178, PRP8, U5 snRNP spliceosome subunit [RNA processing and modification]

 Score = 40.3 bits (94), Expect = 0.002
 Identities = 15/22 (68%), Positives = 15/22 (68%), Gaps = 3/22 (13%)

Query: 257 PPPPPPPP---PSSSPFIPPPP 275
           PPPPPPPP   P S P  PPPP
Sbjct: 9   PPPPPPPPGFEPPSQPPPPPPP 30

Length = 2365

>gnl|CDD|218191 pfam04652, DUF605, Vta1 like

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 18/74 (24%), Positives = 23/74 (31%), Gaps = 3/74 (4%)

Query: 256 PPPPPPPPPPSSSPFIPPPPVRPFGSPIGFPEFASPVYYVAAAPPEALRGVPFVAPIPPH 315
           P     PP PSS     PPP     +    P            P + +  +    P PP 
Sbjct: 207 PSDSSLPPAPSSFQSDTPPPSPESPTNPSPPPGP---AAPPPPPVQQVPPLSTAKPTPPS 263

Query: 316 AVFFPAPDPQLHSR 329
           A   PAP   +   
Sbjct: 264 ASATPAPIGGITLD 277

Vta1 (VPS20-associated protein 1) is a positive regulator of Vps4. Vps4 is an ATPase that is required in the multivesicular body (MVB) sorting pathway to dissociate the endosomal sorting complex required for transport (ESCRT). Vta1 promotes correct assembly of Vps4 and stimulates its ATPase activity through its conserved Vta1/SBP1/LIP5 region. Length = 315

>gnl|CDD|236304 PRK08581, PRK08581, N-acetylmuramoyl-L-alanine amidase; Validated

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 18/88 (20%), Positives = 37/88 (42%)

Query: 74  SETTRGSSSSTKSSSDSLKGSVDGSSSSSVLQGTAATNSSSHKQVSNNANPNSTTNHAAS 133
           S+++  + + T+SS      +    SS++    T+    +S K    N + +   +   +
Sbjct: 153 SDSSIKNDTDTQSSKQDKADNQKAPSSNNTKPSTSNKQPNSPKPTQPNQSNSQPASDDTA 212

Query: 134 NRQRSMKRNNSHSSSNGGLPQPPASQGS 161
           N++ S K N S S S         S+ +
Sbjct: 213 NQKSSSKDNQSMSDSALDSILDQYSEDA 240

Length = 619

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	471
cd08037	73	LARP_1 La RNA-binding domain of La-related protein	99.96
cd08036	75	LARP_5 La RNA-binding domain of La-related protein	99.96
cd08038	73	LARP_2 La RNA-binding domain of La-related protein	99.96
cd08035	75	LARP_4 La RNA-binding domain of La-related protein	99.96
cd08034	73	LARP_1_2 La RNA-binding domain proteins similar to	99.96
cd08032	82	LARP_7 La RNA-binding domain of La-related protein	99.95
cd08031	75	LARP_4_5_like La RNA-binding domain of proteins si	99.95
cd08033	77	LARP_6 La RNA-binding domain of La-related protein	99.95
smart00715	80	LA Domain in the RNA-binding Lupus La protein; unk	99.95
cd08028	82	LARP_3 La RNA-binding domain of La-related protein	99.94
cd08029	76	LA_like_fungal La-motif domain of fungal proteins	99.94
cd07323	75	LAM LA motif RNA-binding domain. This domain is fo	99.93
cd08030	90	LA_like_plant La-motif domain of plant proteins si	99.93
KOG2591	684	consensus c-Mpl binding protein, contains La domai	99.92
PF05383	61	La: La domain; InterPro: IPR006630 Human Ro ribonu	99.89
KOG1855	484	consensus Predicted RNA-binding protein [General f	99.86
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	99.83
KOG4213	205	consensus RNA-binding protein La [RNA processing a	99.49
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	99.47
COG5193	438	LHP1 La protein, small RNA-binding pol III transcr	98.64
KOG2590	448	consensus RNA-binding protein LARP/SRO9 and relate	95.38
KOG1924	1102	consensus RhoA GTPase effector DIA/Diaphanous [Sig	92.46
PF01885	186	PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA	91.3
PRK00819	179	RNA 2'-phosphotransferase; Reviewed	91.29
PF09421	989	FRQ: Frequency clock protein; InterPro: IPR018554	90.72
KOG2278	207	consensus RNA:NAD 2'-phosphotransferase TPT1 [Tran	86.03

>cd08037 LARP_1 La RNA-binding domain of La-related protein 1

Probab=99.96  E-value=7.3e-31  Score=214.63  Aligned_cols=73  Identities=48%  Similarity=0.837  Sum_probs=71.3

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK  399 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR  399 (471)
                      ++.|++||||||||+||++|.|||++||+||||||++|++|||||+||.|+++|++||+.|++|||+++||||
T Consensus         1 ~~~I~~QvEyYFSd~NL~~D~fLr~~md~dG~Vpi~~ia~F~rmk~Lt~d~~~I~~Al~~S~~vev~~~~~r~   73 (73)
T cd08037           1 KDYIKRQIEYYFSVDNLERDFFLRRKMDEDGFLPVTLIASFHRVQALTTDISLIIKALKDSKVVEIIDMKIRR   73 (73)
T ss_pred             ChHHHHHHHHhccHhhhccCHHHHHHhccCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEecchhcC
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999997

This domain is found in vertebrate La-related protein 1 (LARP1). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08036 LARP_5 La RNA-binding domain of La-related protein 5

Probab=99.96  E-value=7.4e-31  Score=215.36  Aligned_cols=72  Identities=32%  Similarity=0.648  Sum_probs=69.1

Q ss_pred             HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779          328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK  399 (471)
Q Consensus       328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR  399 (471)
                      +.|++||||||||+||++|.|||++||+||||||++||+|||||+||.|+++|++||+.|++|||+  |+|||.
T Consensus         2 e~i~kQvEyYFS~~NL~~D~fLr~~md~~g~Vpi~~ia~F~rik~Lt~D~~lI~~aL~~S~~vevse~g~kVRp   75 (75)
T cd08036           2 ELLKKTLEFCLSRENLASDMYLISQMDSDQYVPIMTVANLDHIKKLSTDVDLIVDVLRSLPLVQVDEKGEKVRP   75 (75)
T ss_pred             hhhhcceeeeechhhccccHHHHHHhccCCCEehHHHhccHHHHHhcCCHHHHHHHHhhCCeEEECCCCCccCc
Confidence            679999999999999999999999999999999999999999999999999999999999999996  678873

This domain is found in vertebrate La-related protein 5 (LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08038 LARP_2 La RNA-binding domain of La-related protein 2

Probab=99.96  E-value=1.1e-30  Score=213.50  Aligned_cols=73  Identities=55%  Similarity=0.878  Sum_probs=71.4

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK  399 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR  399 (471)
                      +++|++||||||||+||++|.|||++||.||||||++|++|||||+|+.|.++|++||+.|+.|||++++|||
T Consensus         1 ~e~I~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~ia~F~rmk~lt~d~~~I~~Al~~S~~ve~~~~~~r~   73 (73)
T cd08038           1 KEYIKRQIEYYFSTENLERDFFLRRKMDLQGFLPISLIAGFYRVQALTTNVDLILEALKDSTEVEIVDQKIRR   73 (73)
T ss_pred             ChHHHhhHHhhcchhhhccCHHHHHHhCCCCCEeHHHHhcchHHHHhcCCHHHHHHHHHcCCeEEEeCCcccC
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999996

This domain is found in vertebrate La-related protein 2 (LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08035 LARP_4 La RNA-binding domain of La-related protein 4

Probab=99.96  E-value=2.3e-30  Score=212.68  Aligned_cols=73  Identities=40%  Similarity=0.697  Sum_probs=69.5

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK  399 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR  399 (471)
                      +++|++||||||||+||++|.||+++||+||||||++|++|||||+||.|+++|++||+.|++|||+  |+|||.
T Consensus         1 ~e~i~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpi~~iasF~rik~lt~d~~~I~~AL~~S~~levsedg~kVRp   75 (75)
T cd08035           1 RECLKKQLEFCFSRENLSKDLYLISQMDSDQFVPIWTVANMEGIKKLTTDMDLILDVLRSSPMVQVDETGEKVRP   75 (75)
T ss_pred             ChHHHhhHHhhcCHhhcccCHHHHHhhCcCCCEehHHHhccHHHHHhcCCHHHHHHHHHcCCeEEEcCCCCccCc
Confidence            3689999999999999999999999999999999999999999999999999999999999999996  678874

This domain is found in vertebrate La-related protein 4 (LARP4), also known as c-MPL binding protein. La-type domains often co-occur with RNA-recognition motifs (RRMs). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08034 LARP_1_2 La RNA-binding domain proteins similar to La-related proteins 1 and 2

Probab=99.96  E-value=4e-30  Score=210.12  Aligned_cols=73  Identities=51%  Similarity=0.849  Sum_probs=71.2

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK  399 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR  399 (471)
                      +++|++||||||||+||+||.||+++||.||||||++|++|+|||+|+.|.++|++||+.|+.|||+++|||+
T Consensus         1 ~~~i~~QvEfYFSd~NL~~D~fLr~~m~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~lev~e~kvR~   73 (73)
T cd08034           1 KEYIKKQIEYYFSVDNLEKDFFLRRKMDPEGYLPIALIASFHRVQALTTDVNLILEALKDSTVVELVDEKVRC   73 (73)
T ss_pred             ChHHHhhHHhhcCHhhhccCHHHHHHcCCCCCEeHHHHhccHHHHHHcCCHHHHHHHHHcCCeEEEecCeecC
Confidence            3689999999999999999999999999999999999999999999999999999999999999999999996

This domain is found in proteins similar to vertebrate La-related proteins 1 and 2 (LARP1, LARP2). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08032 LARP_7 La RNA-binding domain of La-related protein 7

Probab=99.95  E-value=4.4e-29  Score=208.09  Aligned_cols=76  Identities=42%  Similarity=0.712  Sum_probs=72.5

Q ss_pred             HHHHHHHHhhhhhhcCCCCCCcchHHHHhhc--CCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779          324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNMD--DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK  399 (471)
Q Consensus       324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD--~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR  399 (471)
                      ++|.++|++||||||||+||++|.||+++|+  .||||||++|++|||||+||.|.++|++||+.|+.|||++  ++|||
T Consensus         3 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VRR   82 (82)
T cd08032           3 KQLLADIAKQVDFWFGDVNLHKDRFLREQIEKSRDGYIDISLLVSFNKMKKLTTDGKLIARALKNSSVVELNLEGTRIRR   82 (82)
T ss_pred             HHHHHHHHHHHHhhcchhhcccCHHHHHHhcCCCCCCEeHHHHhcchHHHHHcCCHHHHHHHHhcCCEEEEcCCCCccCC
Confidence            5899999999999999999999999999997  7999999999999999999999999999999999999984  67886

LARP7 is a component of the 7SK snRNP, a key factor in the regulation of RNA polymerase II transcription. 7SK functionality is dependent on the presence of LARP7, which is thought to stabilize the 7SK RNA by interacting with its 3' end. The release of 7SK RNA from P-TEFb/HEXIM/7SK complexes activates the cyclin-dependent kinase P-TEFb, which in turn phosphorylates the C-terminal domain of RNA pol II and mediates a transition into productive transcription elongation.

>cd08031 LARP_4_5_like La RNA-binding domain of proteins similar to La-related proteins 4 and 5

Probab=99.95  E-value=1.1e-28  Score=202.57  Aligned_cols=72  Identities=46%  Similarity=0.798  Sum_probs=68.6

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR  398 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR  398 (471)
                      +++|++||||||||+||+||.||+++|++||||||++|++|||||+||.|.++|++||+.|+.|||+  +++||
T Consensus         1 ~~~i~~QvEfYFSd~NL~~D~fL~~~m~~dG~Vpl~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR   74 (75)
T cd08031           1 KELLKRQLEYYFSRENLANDAYLLSQMDSDQYVPIWTIANFNKIKKLTTDIDLIVEALRESPNVQVDEKGEKVR   74 (75)
T ss_pred             ChHHHHHHHHHcCHhhhccCHHHHHHhCCCCCEEHHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCccC
Confidence            3689999999999999999999999999999999999999999999999999999999999999998  45676

This domain is found in proteins similar to La-related proteins 4 and 5 (LARP4, LARP5). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08033 LARP_6 La RNA-binding domain of La-related protein 6

Probab=99.95  E-value=1.3e-28  Score=202.98  Aligned_cols=72  Identities=44%  Similarity=0.826  Sum_probs=68.7

Q ss_pred             HHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779          328 SRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK  399 (471)
Q Consensus       328 ~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR  399 (471)
                      ++|++||||||||+||++|.||+++|  |.||||||++|++|||||+|+.|.++|++||+.|..|||++  ++|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~Vpl~~i~~F~rmk~l~~d~~~I~~Al~~S~~lev~~d~~~VRR   77 (77)
T cd08033           2 QKIVKQVEYYFSDENLLKDAFLLKHVRRNKEGYVPIKLIASFKKVKALTRDWRVVAAALRRSSKLVVSEDGKKVRR   77 (77)
T ss_pred             hHHHhHHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhcchHHHHHcCCHHHHHHHHHhCCeEEEcCCCCccCC
Confidence            58999999999999999999999999  78999999999999999999999999999999999999985  57886

This domain is found in animal and plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>smart00715 LA Domain in the RNA-binding Lupus La protein; unknown function

Probab=99.95  E-value=1.8e-28  Score=203.19  Aligned_cols=76  Identities=49%  Similarity=0.861  Sum_probs=72.4

Q ss_pred             HHHHHHHhhhhhhcCCCCCCcchHHHHhhcC-CCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEecC
Q 039779          325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMDD-QGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRKR  400 (471)
Q Consensus       325 ~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~-dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRRR  400 (471)
                      +++++|++||||||||+||++|.||+++|+. ||||||++|++|+|||+|+.|.++|++||+.|..|||++  .+|||+
T Consensus         2 ~~~~~i~~QvEfYFSd~NL~~D~fLr~~~~~~~g~Vpl~~i~~F~r~k~l~~d~~~i~~Al~~S~~lel~~d~~~VRR~   80 (80)
T smart00715        2 ELKQKIKKQVEYYFSDENLPRDKFLRKKMDKNDGYVPISTIASFKRVKSLTTDVNLIVEALRSSPKLEVSEDGLKVRRR   80 (80)
T ss_pred             hHHHHHHHHHHHHcCHhhhhhCHHHHHHhccCCCCEEhHHHhCchhHHHHcCCHHHHHHHHHhCCeEEEcCCCCeeCcC
Confidence            6889999999999999999999999999997 999999999999999999999999999999999999984  578874

>cd08028 LARP_3 La RNA-binding domain of La-related protein 3

Probab=99.94  E-value=4e-28  Score=202.25  Aligned_cols=76  Identities=37%  Similarity=0.800  Sum_probs=71.5

Q ss_pred             HHHHHHHHhhhhhhcCCCCCCcchHHHHhhc-CCCcEehhhhccccchhcccCCHHHHHHHHhhCC--cEEEcC--CeEe
Q 039779          324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSST--VVEVQG--DRIR  398 (471)
Q Consensus       324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD-~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~--~LEV~g--dkVR  398 (471)
                      ++|+.+|++||||||||+||++|.||+++|+ +||||||++|++|||||+|+.|.++|++||+.|+  +|||++  .+||
T Consensus         2 ~~l~~~I~~QvEfYFSd~NL~~D~fLr~~m~~~~G~Vpl~~i~~F~rmk~l~~d~~~i~~Al~~S~~~~lev~~d~~~VR   81 (82)
T cd08028           2 DDLEKKIIRQIEYYFGDFNLPRDKFLKEQIKEDDGWVPMEVMLKFNRLKSLSSDPEVIAKALKKSKSGLIEVSEDKTKIR   81 (82)
T ss_pred             hHHHHHHHHHHHhhcCHhhhccCHHHHHHHhccCCCEEhHHHhCChhHHHhcCCHHHHHHHHHhCCCCEEEEcCCCCccC
Confidence            3689999999999999999999999999997 6999999999999999999999999999999999  999985  5677


Q ss_pred             c
Q 039779          399 K  399 (471)
Q Consensus       399 R  399 (471)
                      |
T Consensus        82 R   82 (82)
T cd08028          82 R   82 (82)
T ss_pred             C
Confidence            6

This domain is found at the N-terminus of the La autoantigen and similar proteins, and co-occurs with an RNA-recognition motif (RRM). Together these domains function to bind primary transcripts of RNA polymerase III at their 3' terminus and protect them from exonucleolytic degradation. Binding is specific for the 3'-terminal UUU-OH motif. The La autoantigen is also called Lupus La protein, LARP3, or Sjoegren syndrome type B antigen (SS-B).

>cd08029 LA_like_fungal La-motif domain of fungal proteins similar to the La autoantigen

Probab=99.94  E-value=1.4e-27  Score=196.39  Aligned_cols=71  Identities=37%  Similarity=0.752  Sum_probs=67.0

Q ss_pred             HHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779          328 SRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK  399 (471)
Q Consensus       328 ~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR  399 (471)
                      ++|++||||||||+||++|.|||++|  +.||||||++|++|+|||+|+.+ ++|++||+.|+.|||+  +++|||
T Consensus         2 ~~I~~QvEfYFSd~NL~~D~fLr~~~~~~~~G~Vpl~~i~~F~rmk~l~~~-~~i~~Al~~S~~lev~~d~~~VRR   76 (76)
T cd08029           2 EEIRKQVEFYFSDSNLPTDKFLWTLTGGSNNGWVPIKTIASFKRMRRFQPL-EAVVEALRESELLEVSEDGENVRR   76 (76)
T ss_pred             hHHHhhHHhhcCHhhhccCHHHHHHhccCCCCcEehHHHhCchHHHHcCCH-HHHHHHHHhCCeEEEeCCCCcccC
Confidence            58999999999999999999999999  69999999999999999999976 9999999999999998  567887

This domain is found in fungal proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd07323 LAM LA motif RNA-binding domain

Probab=99.93  E-value=3.4e-27  Score=193.08  Aligned_cols=72  Identities=56%  Similarity=1.000  Sum_probs=69.0

Q ss_pred             HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcC--CeEec
Q 039779          328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQG--DRIRK  399 (471)
Q Consensus       328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~g--dkVRR  399 (471)
                      ++|++||||||||+||++|.||+++|++||||||++|++|+|||+|+.|.++|++||+.|..|||++  .+|||
T Consensus         2 ~~i~~QvEfYFSd~NL~~D~fL~~~~~~~g~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~s~~lel~~~~~~Vrr   75 (75)
T cd07323           2 EKIKKQVEYYFSDENLCKDRFLRSLMDDDGWVPLSLLASFNRVKKLTTDVELILEALRDSSVVEVSEDGTKVRR   75 (75)
T ss_pred             hHHHhhhHhccCHhhhCcCHHHHHhcCCCCCEEHHHHhCchHHHHHcCCHHHHHHHHHhCCeEEEeCCCCccCC
Confidence            5799999999999999999999999999999999999999999999999999999999999999985  57876

This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>cd08030 LA_like_plant La-motif domain of plant proteins similar to the La autoantigen

Probab=99.93  E-value=7e-27  Score=197.91  Aligned_cols=73  Identities=32%  Similarity=0.680  Sum_probs=67.7

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccC------------CHHHHHHHHhhCCcEEE
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTD------------NIQLILDALRSSTVVEV  392 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~------------D~~lI~eALr~S~~LEV  392 (471)
                      +++|++||||||||+||++|+||+++|  +.||||||++|++|||||+|+.            |+++|++||+.|.+|||
T Consensus         2 ~~~i~~QvEfYFSd~NL~~D~fL~~~~~~~~dG~V~i~~i~~F~rmk~l~~~~~~~~~~~~~~~~~~I~~ALk~S~~lev   81 (90)
T cd08030           2 KEKVLRQVEFYFSDSNLPRDDFLLEEVEEDPDGMVSLALICSFSRMRSLLGLGGGKPEDVPEDTLKAVAEALRTSTLLKV   81 (90)
T ss_pred             hHHHHHHHHcccchhhcccCHHHHHHhccCCCCCEehHHHhcChHHHHHhhcccccccccchhHHHHHHHHHccCCEEEE
Confidence            689999999999999999999999999  7899999999999999999985            37899999999999999


Q ss_pred             cC--CeEec
Q 039779          393 QG--DRIRK  399 (471)
Q Consensus       393 ~g--dkVRR  399 (471)
                      ++  .+|||
T Consensus        82 seD~~~VRR   90 (90)
T cd08030          82 SEDGKRVGR   90 (90)
T ss_pred             cCCCCccCC
Confidence            85  46776

This domain is found in plant proteins related to the La autoantigen. A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.

>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]

Probab=99.92  E-value=2.6e-26  Score=241.37  Aligned_cols=125  Identities=26%  Similarity=0.425  Sum_probs=109.7

Q ss_pred             CcHHHHHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEec
Q 039779          322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIRK  399 (471)
Q Consensus       322 ~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVRR  399 (471)
                      ++.+|++.|++|||||||.+||..|+||+++||+|.||||.+||.|++|++||+|++||+|+||+|+.||||  |+|||.
T Consensus        92 ls~~~kq~lk~qlEy~fSreNlssD~YL~sQMDSDqyVPI~tva~~~~i~klttDvdLI~Evlresp~VqvDekgekVrp  171 (684)
T KOG2591|consen   92 LSRDLKQLLKKQLEYYFSRENLSSDRYLISQMDSDQYVPINTVANFPEIMKLTTDVDLIVEVLRESPNVQVDEKGEKVRP  171 (684)
T ss_pred             cchhHHHHHHHHHHHhhccccccchhhhhhhcccccccchhhhccchhhhhhccchHHHHHHHhcCCCceeccCcccccc
Confidence            445999999999999999999999999999999999999999999999999999999999999999999998  679998


Q ss_pred             CCCCccccCC----CCCCCCCCCCCC----CCCCcHHHHhhcccccceecccccC
Q 039779          400 RNDWMRWIMP----PGKFSSLPSPQS----QGKSGIDMLSAQVQSISLDQKTLNH  446 (471)
Q Consensus       400 R~~w~kwvlp----~~~~~~v~gp~s----~~~~Sid~Lae~f~~Itle~~~~~~  446 (471)
                      ....+..||-    ..+.+.|+++|.    ++.++|+|.+++.|+||||.++|+|
T Consensus       172 ~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQ  226 (684)
T KOG2591|consen  172 NHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQ  226 (684)
T ss_pred             CcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHH
Confidence            8888877773    233344444431    2789999999999999999999874

>PF05383 La: La domain; InterPro: IPR006630 Human Ro ribonucleoproteins (RNPs) are composed of one of the four small Y RNAs and at least two proteins, Ro60 and La

Probab=99.89  E-value=3.1e-24  Score=169.64  Aligned_cols=58  Identities=55%  Similarity=0.996  Sum_probs=53.4

Q ss_pred             HHhhhhhhcCCCCCCcchHHHHhhcC--CCcEehhhhccccchhccc-CCHHHHHHHHhhC
Q 039779          330 IVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLT-DNIQLILDALRSS  387 (471)
Q Consensus       330 I~kQIEYYFSDeNL~kD~FLRs~MD~--dG~VPIs~IasFnRVK~LT-~D~~lI~eALr~S  387 (471)
                      |++||||||||+||++|.||+++|+.  ||||||++|++|+|||+|+ .|.++|++||+.|
T Consensus         1 I~~QvEfYFSd~NL~~D~fL~~~~~~~~~g~Vpi~~i~~F~r~k~l~~~~~~~I~~al~~S   61 (61)
T PF05383_consen    1 IKKQVEFYFSDENLPRDKFLRSQMDSNPDGWVPISTILSFNRMKALTNTDIELIVDALRDS   61 (61)
T ss_dssp             HHHHHHHHTSHHHHCC-HHHHHHHCTTTTTBEEHHHHTTSHHHHHH--S-HHHHHHHHHTS
T ss_pred             ChhHHHHhcCHHHhCcCHHHHHHHHhcCCCcEeHHHHHchHHHHHHhcCCHHHHHHHHHcC
Confidence            78999999999999999999999986  9999999999999999999 8999999999987

The La protein is a 47 kDa polypeptide that frequently acts as an autoantigen in systemic lupus erythematosus and Sjogren's syndrome []. In the nucleus, La acts as a RNA polymerase III (RNAP III) transcription factor, while in the cytoplasm, La acts as a translation factor []. In the nucleus, La binds to the 3'UTR of nascent RNAP III transcripts to assist in folding and maturation []. In the cytoplasm, La recognises specific classes of mRNAs that contain a 5'-terminal oligopyrimidine (5'TOP) motif known to control protein synthesis []. The specific recognition is mediated by the N-terminal domain of La, which comprises a La motif and a RNA recognition motif (RRM). The La motif adopts an alpha/beta fold that comprises a winged-helix motif []. Homologous La domain-containing proteins have been identified in a wide range of organisms except Archaea, bacteria and viruses [].; PDB: 1S29_A 1YTY_B 2VOO_B 1S7A_A 2VOP_A 2VON_B 1ZH5_B 2VOD_A 2CQK_A.

>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]

Probab=99.86  E-value=1.7e-22  Score=208.04  Aligned_cols=120  Identities=31%  Similarity=0.512  Sum_probs=101.4

Q ss_pred             cHHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779          323 DPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR  398 (471)
Q Consensus       323 d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR  398 (471)
                      -++|..+|++||||||||+||.+|.||.++|  |++|||||++|++|||||+||.|+.+|.+|||.|.+|||+  |.|||
T Consensus       137 sedl~~kIv~QVEyyFSDenL~~d~fLlkhvrrnkeGyVpv~~vaSFKKvK~LTrd~~~va~ALr~S~kL~vseDgkKVr  216 (484)
T KOG1855|consen  137 SEDLAAKIVDQVEYYFSDENLLKDAFLLKHVRRNKEGYVPVKLVASFKKVKALTRDWKLVADALRKSSKLEVSEDGKKVR  216 (484)
T ss_pred             cHHHHHHHHHHhheeeccccccchHHHHHHHhcCCCCceeeehhhhHHHHHHHhhhhHHHHHHHhhcceEEEccCCceee
Confidence            4689999999999999999999999999999  5899999999999999999999999999999999999997  56999


Q ss_pred             cCCCCccccCCCCC-CCCCCCCCCCCCCcHHHHhhcccccceeccc
Q 039779          399 KRNDWMRWIMPPGK-FSSLPSPQSQGKSGIDMLSAQVQSISLDQKT  443 (471)
Q Consensus       399 RR~~w~kwvlp~~~-~~~v~gp~s~~~~Sid~Lae~f~~Itle~~~  443 (471)
                      |..++..+..++.+ +..|++.. +.+-..+.|.+.|..++--..+
T Consensus       217 RisPlp~~~~eel~srtivaenL-P~Dh~~enl~kiFg~~G~IksI  261 (484)
T KOG1855|consen  217 RISPLPEFDEEELPSRTIVAENL-PLDHSYENLSKIFGTVGSIKSI  261 (484)
T ss_pred             ecCCCCCccccccccceEEEecC-CcchHHHHHHHHhhcccceeee
Confidence            99988877776444 23334443 3556678899998877655433

>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]

Probab=99.83  E-value=7.2e-20  Score=191.10  Aligned_cols=79  Identities=42%  Similarity=0.700  Sum_probs=71.9

Q ss_pred             HHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCCeEec-CCCCcc
Q 039779          327 HSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGDRIRK-RNDWMR  405 (471)
Q Consensus       327 ~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gdkVRR-R~~w~k  405 (471)
                      .+.|.+|||||||.||||+|.||+++|     |+|.||++|+||+.|+.|+++|++||+.+.+||+.++.+|| +..|-.
T Consensus       301 ~~~~~~~ie~~FSeE~~~~d~~n~~k~-----~~l~~ia~F~r~ad~s~d~nli~~alr~s~ive~~~d~~~r~~~~~g~  375 (448)
T KOG2590|consen  301 IAFIQEPIEFYFSEENLQRDRFNREKF-----VPLRVIAKFKRVADLSSDINLILAALRNSLIVEETGDLERRGGDRWGN  375 (448)
T ss_pred             ccccccccccccchHHHhhhhhhhccc-----chhhhhhhhhhhhhcccCHHHHHHHHhhhhhhhccchhhhcccccccc
Confidence            356889999999999999999999865     66999999999999999999999999999999999998888 788888


Q ss_pred             ccCCC
Q 039779          406 WIMPP  410 (471)
Q Consensus       406 wvlp~  410 (471)
                      |++..
T Consensus       376 ~~~ra  380 (448)
T KOG2590|consen  376 HVSRA  380 (448)
T ss_pred             eeccc
Confidence            88854

>KOG4213 consensus RNA-binding protein La [RNA processing and modification]

Probab=99.49  E-value=1.3e-14  Score=136.86  Aligned_cols=77  Identities=39%  Similarity=0.833  Sum_probs=70.1

Q ss_pred             HHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhC--CcEEEcCC--eE
Q 039779          324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS--TVVEVQGD--RI  397 (471)
Q Consensus       324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S--~~LEV~gd--kV  397 (471)
                      +.|.++|..||||||.|-||.||.|||.++  ..+|||||.+++.|||+..|++|.+.|++||+.|  .++||++|  ++
T Consensus        11 a~lE~kii~qleyy~Gd~nl~rdkfl~eqi~k~~~gwvpi~i~i~FnRla~lttD~~~Iv~al~ksk~~l~eisedk~k~   90 (205)
T KOG4213|consen   11 AALEAKIIHQLEYYFGDLNLPRDKFLREQIHKLDDGWVPIEIMIKFNRLASLTTDFNVIVEALSKSKAELMEISEDKTKI   90 (205)
T ss_pred             hHHHHhhhhhhhhhhcccCchHHHHHHHHhhhhccCCccchhhhhhhhhhhccccHHHHHHHHhhCHHhhhhhhhchhhh
Confidence            468889999999999999999999999999  3899999999999999999999999999999988  57889876  56


Q ss_pred             ecC
Q 039779          398 RKR  400 (471)
Q Consensus       398 RRR  400 (471)
                      ||.
T Consensus        91 rr~   93 (205)
T KOG4213|consen   91 RRS   93 (205)
T ss_pred             hcC
Confidence            664

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=99.47  E-value=8.6e-15  Score=150.73  Aligned_cols=82  Identities=32%  Similarity=0.682  Sum_probs=71.1

Q ss_pred             HHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhC------CcEE----------
Q 039779          328 SRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS------TVVE----------  391 (471)
Q Consensus       328 ~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S------~~LE----------  391 (471)
                      ..++.|||||||.+|||.|.|||++|+++||||+++|..|.|++.+..|.+||+.|||.+      ..+|          
T Consensus       272 ~a~k~QiEyYFseenl~~d~~lrkk~~kaGf~plsfi~kf~Rn~Sf~gd~nLilaa~ke~v~n~a~~~~~~~~~~~~d~~  351 (438)
T COG5193         272 MAKKEQIEYYFSEENLKSDEFLRKKFKKAGFIPLSFIGKFYRNLSFGGDKNLILAAMKEVVQNKATNHLEIALGSIEDAQ  351 (438)
T ss_pred             hhHHhhhHhhhhHHhhhhhhHHHhhhhhcccccHhhhhhhhhccccCCchhhhHHHHHHHhhhhhhhhhhhhhhccchhh
Confidence            456779999999999999999999999999999999999999999999999999999987      1111          


Q ss_pred             ---Ec----C-CeEecCCCCccccCC
Q 039779          392 ---VQ----G-DRIRKRNDWMRWIMP  409 (471)
Q Consensus       392 ---V~----g-dkVRRR~~w~kwvlp  409 (471)
                         .+    + ..++|++.|..|+++
T Consensus       352 ~~~~k~~sp~~~~f~rkk~wSewl~e  377 (438)
T COG5193         352 KNEAKDFSPGKKYFIRKKEWSEWLME  377 (438)
T ss_pred             hccccccCcchhhhhhhhhhhhhhcc
Confidence               11    1 258889999999996

>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=9e-09  Score=106.95  Aligned_cols=73  Identities=34%  Similarity=0.646  Sum_probs=65.8

Q ss_pred             HHhhhhhhcC-----CCCCCcchHHHHhhc----CCCcEehhhhccccchhcccCCHHHHHHHHhhC---CcEEEc--CC
Q 039779          330 IVTQIDYYFS-----NENLVKDTFLRQNMD----DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS---TVVEVQ--GD  395 (471)
Q Consensus       330 I~kQIEYYFS-----DeNL~kD~FLRs~MD----~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S---~~LEV~--gd  395 (471)
                      +..|+|||||     |.|+.+|+||+..--    .+|||||.++++|+|||.++..+..|..|++.|   .++|++  |.
T Consensus        75 ~l~qvE~~fS~s~~~d~n~~~dk~~ktta~Kn~~~~kwVpIkt~~tfn~~k~~gs~~~~v~~a~rks~~~rv~e~Sssgs  154 (438)
T COG5193          75 TLKQVEFYFSGSKDTDSNFPKDKFLKTTAPKNKKRDKWVPIKTIATFNRMKNSGSPVSAVSGALRKSLDARVLEVSSSGS  154 (438)
T ss_pred             cccceeEEeeccccccccccchhhhccccccccCCCCceeeeeeeeeccccccCCchhhhhhhhhcCcccceeeeccccc
Confidence            8899999999     999999999997752    599999999999999999999999999999999   788886  66


Q ss_pred             eEecCCC
Q 039779          396 RIRKRND  402 (471)
Q Consensus       396 kVRRR~~  402 (471)
                      ++||++.
T Consensus       155 n~~r~~k  161 (438)
T COG5193         155 NKNRTEK  161 (438)
T ss_pred             cccccch
Confidence            7777653

>KOG2590 consensus RNA-binding protein LARP/SRO9 and related La domain proteins [Posttranslational modification, protein turnover, chaperones; Translation, ribosomal structure and biogenesis]

Probab=95.38  E-value=0.0029  Score=67.69  Aligned_cols=89  Identities=21%  Similarity=0.238  Sum_probs=80.3

Q ss_pred             CCcHHHHHHHHh--hhhhhcCCCCCCcchHHHHhhcCCC---cEehhhhccccchhcccCCHHHHHHHHhhCCcEEEcCC
Q 039779          321 APDPQLHSRIVT--QIDYYFSNENLVKDTFLRQNMDDQG---WVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQGD  395 (471)
Q Consensus       321 ~~d~~L~~~I~k--QIEYYFSDeNL~kD~FLRs~MD~dG---~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~gd  395 (471)
                      ++...|++.+..  +++|||+..++.+|.|++.+|+..|   |.+++.+..|.++..++++..+++..++.|...+....
T Consensus        92 ~ps~~l~e~~~~~k~~s~~~~~~~~~~~~~~~~k~~~t~~~~~~~~S~~~~s~~~~~~s~n~~~~~~~~~~sa~~~~~~~  171 (448)
T KOG2590|consen   92 VPSPPLKEYSKSDKKKSWPASKPFTPRDSFKGSKPTNTGNGTFLPISKISSSGPVSGGSANNSNIRGPLKGSASSNPVPN  171 (448)
T ss_pred             cccccccccccccccccCcccCCCCccccccCCCccccCCCccCCCccccccccccCcccccccccCcCCCCCcCCcCcc
Confidence            344456666655  9999999999999999999999888   99999999999999999999999999999888888899


Q ss_pred             eEecCCCCccccCC
Q 039779          396 RIRKRNDWMRWIMP  409 (471)
Q Consensus       396 kVRRR~~w~kwvlp  409 (471)
                      ++|++..-++|...
T Consensus       172 ~~~~~~~~qr~~~~  185 (448)
T KOG2590|consen  172 NSRAKPLNQRWPDS  185 (448)
T ss_pred             ccccccccccCCCC
Confidence            99999999999885

>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]

Probab=92.46  E-value=0.48  Score=54.38  Aligned_cols=18  Identities=22%  Similarity=0.038  Sum_probs=9.2

Q ss_pred             CCCcEehhhhccccchhcc
Q 039779          355 DQGWVPIRLIAGFNKVSLL  373 (471)
Q Consensus       355 ~dG~VPIs~IasFnRVK~L  373 (471)
                      .+|-|.-+++ .-++++.|
T Consensus       676 ~e~~eekkt~-~kKk~kel  693 (1102)
T KOG1924|consen  676 QEGGEEKKTG-TKKKVKEL  693 (1102)
T ss_pred             ccccccccch-hhhhhhhh
Confidence            3455655555 34555544

>PF01885 PTS_2-RNA: RNA 2'-phosphotransferase, Tpt1 / KptA family; InterPro: IPR002745 The final step of tRNA splicing in Saccharomyces cerevisiae (Baker's yeast) requires 2'-phosphotransferase (Tpt1) to transfer the 2'-phosphate from ligated tRNA to NAD, producing mature tRNA and ADP ribose-1' '-2' '-cyclic phosphate

Probab=91.30  E-value=0.22  Score=47.56  Aligned_cols=51  Identities=24%  Similarity=0.308  Sum_probs=35.9

Q ss_pred             hhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEc-----CCeEecCCC
Q 039779          352 NMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQ-----GDRIRKRND  402 (471)
Q Consensus       352 ~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~-----gdkVRRR~~  402 (471)
                      .||.||||.|+.|+...+++.+..+.+.|.++++..++  .|+.     +.+||.+..
T Consensus        26 ~~d~~G~v~v~dLL~~~~~~~~~~t~~~i~~vV~~~~K~Rfel~~~~~~~~~IRA~qG   83 (186)
T PF01885_consen   26 VMDPDGWVSVDDLLRALRFKGLWVTEEDIREVVETDDKQRFELRYEDPGGWRIRANQG   83 (186)
T ss_dssp             ---TT--EEHHHHHHHHHHT-TT--HHHHHHHHHH-SS--EEEE-----TTEEEESS-
T ss_pred             ccCCCCCEeHHHHHHHHHHcCCCCCHHHHHHHHhhCCCCCeeEEcccccCceEEECCC
Confidence            37899999999999999999887789999999998864  5666     789998864

Yeast and Mus musculus (Mouse) Tpt1 protein and bacterial KptA protein can catalyze the conversion of the generated intermediate to both product and the original substrate, these enzymes likely use the same reaction mechanism. Step 1 of this reaction is strikingly similar to the ADP-ribosylation of proteins catalyzed by a number of bacterial toxins. KptA, a functional Tpt1 protein homologue from Escherichia coli is strikingly similar to yeast Tpt1 in its kinetic parameters, although E. coli is not known to have a 2'-phosphorylated RNA substrate [,].; GO: 0016772 transferase activity, transferring phosphorus-containing groups, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1WFX_A.

>PRK00819 RNA 2'-phosphotransferase; Reviewed

Probab=91.29  E-value=0.26  Score=47.09  Aligned_cols=53  Identities=26%  Similarity=0.418  Sum_probs=42.4

Q ss_pred             hhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc--EEEcCCeEecCCCCc
Q 039779          352 NMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV--VEVQGDRIRKRNDWM  404 (471)
Q Consensus       352 ~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~--LEV~gdkVRRR~~w~  404 (471)
                      .||.+|||+|+.|+...+.+....+.+.|.+++++.++  .|+++++||.+....
T Consensus        27 ~ld~~G~v~v~~Ll~~~~~~~~~~t~~~l~~vV~~d~K~Rf~l~~~~IRA~qGHS   81 (179)
T PRK00819         27 TLDEEGWVDIDALIEALAKAYKWVTRELLEAVVESDDKGRFEISGDRIRARQGHS   81 (179)
T ss_pred             ccCCCCCEEHHHHHHHHHHccCCCCHHHHHHHHHcCCCcceEecCceEEeccCcC
Confidence            37899999999999877654334578999999998865  567899999987654

>PF09421 FRQ: Frequency clock protein; InterPro: IPR018554 The frequency clock protein, is the central component of the frq-based circadian negative feedback loop, regulates various aspects of the circadian clock in Neurospora crassa []

Probab=90.72  E-value=0.21  Score=58.03  Aligned_cols=50  Identities=24%  Similarity=0.506  Sum_probs=44.3

Q ss_pred             hcCCCcEehhhhccccchhcccCCHHHHHHHHhh-CCcEEEc--CCeEecCCC
Q 039779          353 MDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRS-STVVEVQ--GDRIRKRND  402 (471)
Q Consensus       353 MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~-S~~LEV~--gdkVRRR~~  402 (471)
                      .|.+|||-|.|||+.-.|--|..+.+.|+.||.+ |.++||.  |.|||=|-.
T Consensus       473 pDaeGWVYLNLL~NmAQLHiiNVTPdFVRsAV~E~StKfQLSpDGrKIRWRGG  525 (989)
T PF09421_consen  473 PDAEGWVYLNLLCNMAQLHIINVTPDFVRSAVSEKSTKFQLSPDGRKIRWRGG  525 (989)
T ss_pred             cccccceehHHHHHHHHHHhhccCHHHHHHHHHhcccceeeCCCCCeeeecCC
Confidence            4789999999999999999999999999999965 8999995  889996653

This protein has been shown to interact with itself via a coiled-coil [].

>KOG2278 consensus RNA:NAD 2'-phosphotransferase TPT1 [Translation, ribosomal structure and biogenesis]

Probab=86.03  E-value=0.65  Score=45.17  Aligned_cols=41  Identities=24%  Similarity=0.381  Sum_probs=35.8

Q ss_pred             HHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCc
Q 039779          349 LRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTV  389 (471)
Q Consensus       349 LRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~  389 (471)
                      ++=+|+.||||+|..|++.|+.|.....+++|.++++.-.+
T Consensus        25 ~~L~m~~dGfvpv~~lL~lnq~r~~~~t~ddi~riVk~ndK   65 (207)
T KOG2278|consen   25 LRLNMRGDGFVPVEDLLNLNQFRGANHTIDDIRRIVKRNDK   65 (207)
T ss_pred             hcccccCCCceEHHHHhccchhcccCCcHHHHHHHHhcccc
Confidence            34457899999999999999999998889999999987653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	471
1s7a_A	103	Nmr Structure Of The La Motif Of Human La Protein L		1e-09
2vod_A	193	Crystal Structure Of N-Terminal Domains Of Human La		2e-09
1zh5_A	195	Structural Basis For Recognition Of Uuuoh 3'-Termin		7e-09
1yty_A	194	Structural Basis For Recognition Of Uuuoh 3'-Termin		7e-09
2cqk_A	101	Solution Structure Of The La Domain Of C-Mpl Bindin		1e-07

>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein Length = 103

Iteration: 1
 Score = 60.8 bits (146), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/78 (35%), Positives = 52/78 (66%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
           L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ ++  FN+++ LT +  +I++AL
Sbjct: 13  LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEAL 72
Query: 385 RSST--VVEVQGDRIRKR 400
             S   ++E+  D+ + R
Sbjct: 73  SKSKAELMEISEDKTKIR 90

>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La Protein Complexed With Rna Oligomer Auauuuu Length = 193

Iteration: 1
 Score = 60.5 bits (145), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 52/78 (66%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
           L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ ++  FN+++ LT +  +I++AL
Sbjct: 12  LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEAL 71
Query: 385 RSST--VVEVQGDRIRKR 400
             S   ++E+  D+ + R
Sbjct: 72  SKSKAELMEISEDKTKIR 89

>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 195

Iteration: 1
 Score = 58.5 bits (140), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
           L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ +   FN+++ LT +  +I++AL
Sbjct: 14  LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEAL 73
Query: 385 RSST--VVEVQGDRIRKR 400
             S   + E+  D+ + R
Sbjct: 74  SKSKAELXEISEDKTKIR 91

>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of Nascent Rna Pol Iii Transcripts By La Autoantigen Length = 194

Iteration: 1
 Score = 58.5 bits (140), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
           L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ +   FN+++ LT +  +I++AL
Sbjct: 13  LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEAL 72
Query: 385 RSST--VVEVQGDRIRKR 400
             S   + E+  D+ + R
Sbjct: 73  SKSKAELXEISEDKTKIR 90

>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding Protein Length = 101

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-07,   Method: Composition-based stats.
 Identities = 27/68 (39%), Positives = 44/68 (64%), Gaps = 2/68 (2%)
Query: 333 QIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEV 392
           Q+++ FS ENL KD +L   MD   ++PI  +A   ++  LT +  LIL+ LRSS +V+V
Sbjct: 21  QLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQV 80
Query: 393 --QGDRIR 398
             +G+++R
Sbjct: 81  DEKGEKVR 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	471
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	8e-31
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	5e-29
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	1e-19

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46 Length = 101

 Score =  113 bits (285), Expect = 8e-31
 Identities = 30/91 (32%), Positives = 45/91 (49%)

Query: 320 PAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQL 379
                 L   +  Q+++ FS ENL KD +L   MD   ++PI  +A   ++  LT +  L
Sbjct: 8   AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDL 67

Query: 380 ILDALRSSTVVEVQGDRIRKRNDWMRWIMPP 410
           IL+ LRSS +V+V     + R    R I  P
Sbjct: 68  ILEVLRSSPMVQVDEKGEKVRPSHKRCISGP 98

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46 Length = 92

 Score =  108 bits (271), Expect = 5e-29
 Identities = 20/87 (22%), Positives = 50/87 (57%), Gaps = 4/87 (4%)

Query: 319 FPAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDN 376
                 +   ++  Q+++YFS+ N+ +D FL+  M  + +G+V +  +  F +V+ +T +
Sbjct: 3   HMPLSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTD 62

Query: 377 IQLILDALRSSTVVEVQGD--RIRKRN 401
           ++ +++A+R S  + +  D   +R+R+
Sbjct: 63  VKEVVEAIRPSEKLVLSEDGLMVRRRD 89

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 85.7 bits (211), Expect = 1e-19
 Identities = 25/73 (34%), Positives = 46/73 (63%), Gaps = 1/73 (1%)

Query: 322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLI 380
               L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ ++  FN+++ LT +  +I
Sbjct: 8   KMAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVI 67

Query: 381 LDALRSSTVVEVQ 393
           ++AL  S    ++
Sbjct: 68  VEALSKSKAELME 80

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	471
2cqk_A	101	C-MPL binding protein; LA domain, structural genom	99.97
1s29_A	92	LA protein; winged helix-turn-helix, autoantigen,	99.96
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.89
1wfx_A	186	Probable RNA 2'-phosphotransferase; tRNA splicing,	91.41
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	85.59

>2cqk_A C-MPL binding protein; LA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.46

Probab=99.97  E-value=2.3e-31  Score=227.89  Aligned_cols=87  Identities=34%  Similarity=0.615  Sum_probs=80.9

Q ss_pred             CCCcHHHHHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeE
Q 039779          320 PAPDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRI  397 (471)
Q Consensus       320 p~~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkV  397 (471)
                      ++.+++|+++|++||||||||+||+||.||+++||+||||||++|++|||||+||.|+++|++||+.|++|||+  +++|
T Consensus         8 ~~~~~~l~~~I~~QvEyYFSd~NL~~D~fL~~~md~~G~Vpl~~iasF~r~k~lt~d~~~i~~al~~S~~levsedg~kV   87 (101)
T 2cqk_A            8 AVSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEKV   87 (101)
T ss_dssp             SCCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSSEE
T ss_pred             CCCHHHHHHHHHHHHHhhcchhhhccCHHHHHhhhcCCCEEhHHHhCChHHHHHcCCHHHHHHHHHhCCcEEEcCCCCee
Confidence            45778999999999999999999999999999999999999999999999999999999999999999999997  5699


Q ss_pred             ecCCCCccccC
Q 039779          398 RKRNDWMRWIM  408 (471)
Q Consensus       398 RRR~~w~kwvl  408 (471)
                      ||+.+  +|++
T Consensus        88 Rr~~~--~~i~   96 (101)
T 2cqk_A           88 RPSHK--RCIS   96 (101)
T ss_dssp             EECCS--CCCC
T ss_pred             eeCCC--CCcC
Confidence            99864  4554

>1s29_A LA protein; winged helix-turn-helix, autoantigen, RNA-binding, RNA binding protein; 1.60A {Trypanosoma brucei} SCOP: a.4.5.46

Probab=99.96  E-value=1.4e-30  Score=219.41  Aligned_cols=82  Identities=24%  Similarity=0.569  Sum_probs=78.0

Q ss_pred             CcHHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeE
Q 039779          322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRI  397 (471)
Q Consensus       322 ~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkV  397 (471)
                      .+++++++|++||||||||+||+||.||+++|  |+||||||++|++|||||+||.|+++|++||+.|+.|||+  |++|
T Consensus         6 ~~~~~~~~I~~QvEyYFSd~NL~~D~fL~~~m~~~~~G~Vpl~~i~sF~r~k~lt~d~~~i~~al~~S~~lev~edg~~V   85 (92)
T 1s29_A            6 LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMV   85 (92)
T ss_dssp             CCHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEE
T ss_pred             CCHHHHHHHHHHHHhhcchhhhccCHHHHHHhccCCCCCEEhHHHhCChhHHHHcCCHHHHHHHHhhCCeEEEeCCCCEE
Confidence            67899999999999999999999999999999  7999999999999999999999999999999999999997  6799


Q ss_pred             ecCCCC
Q 039779          398 RKRNDW  403 (471)
Q Consensus       398 RRR~~w  403 (471)
                      ||+.++
T Consensus        86 RR~~Pl   91 (92)
T 1s29_A           86 RRRDPL   91 (92)
T ss_dssp             EESSCC
T ss_pred             eCCCCC
Confidence            999754

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.89  E-value=1.3e-23  Score=192.76  Aligned_cols=111  Identities=27%  Similarity=0.560  Sum_probs=90.7

Q ss_pred             cHHHHHHHHhhhhhhcCCCCCCcchHHHHhhc-CCCcEehhhhccccchhcccCCHHHHHHHHhhC--CcEEEcC--CeE
Q 039779          323 DPQLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSS--TVVEVQG--DRI  397 (471)
Q Consensus       323 d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD-~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S--~~LEV~g--dkV  397 (471)
                      .++|+.+|++||||||||+||++|.||+++|+ ++|||+|++|++|+|||.|+.|.++|++||+.|  ..|+|++  .+|
T Consensus         9 ~~~~~~~i~~q~e~yfs~~nl~~D~fl~~~~~~~~g~V~l~~i~sF~r~k~l~~d~~~I~~Al~~S~~~~lev~ed~~~v   88 (193)
T 2voo_A            9 MAALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKI   88 (193)
T ss_dssp             CHHHHHHHHHHHHHHTSTTTGGGCHHHHHHHHHTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSSEE
T ss_pred             cHHHHHHHHHHhheecchhhcccCHHHHHHhcccCCcEEeHHHhhhhHHHHhcCCHHHHHHHHhhcccceEEEecccceE
Confidence            45899999999999999999999999999998 799999999999999999999999999999999  9999985  578


Q ss_pred             ecCCCCccccCCCC----------CCCCCCCCCCCCCCcHHHHhhcccccc
Q 039779          398 RKRNDWMRWIMPPG----------KFSSLPSPQSQGKSGIDMLSAQVQSIS  438 (471)
Q Consensus       398 RRR~~w~kwvlp~~----------~~~~v~gp~s~~~~Sid~Lae~f~~It  438 (471)
                      ||+..   ..+++.          +...+.++ + ...+.+.|.+.|...+
T Consensus        89 rR~~~---~p~p~~~~~~~~~~~~~~l~V~nL-p-~~~t~~~L~~~F~~~G  134 (193)
T 2voo_A           89 RRSPS---KPLPEVTDEYKNDVKNRSVYIKGF-P-TDATLDDIKEWLEDKG  134 (193)
T ss_dssp             EECTT---SCCCCCCHHHHHHHHHTEEEEECC-C-TTCCHHHHHHHHTTSC
T ss_pred             Eeccc---CCCcccchhhhhccccCEEEecCC-C-CcCCHHHHHHHHhcCC
Confidence            88732   222221          22233333 2 4578888988887654

>1wfx_A Probable RNA 2'-phosphotransferase; tRNA splicing, NAD, structural GE riken structural genomics/proteomics initiative, RSGI; 2.80A {Aeropyrum pernix} SCOP: d.166.1.5

Probab=91.41  E-value=0.17  Score=47.19  Aligned_cols=51  Identities=14%  Similarity=0.166  Sum_probs=40.1

Q ss_pred             hcCCCcEehhhhccccchh--cccCCHHHHHHHHhhCCc--EEEcCCeEecCCCCc
Q 039779          353 MDDQGWVPIRLIAGFNKVS--LLTDNIQLILDALRSSTV--VEVQGDRIRKRNDWM  404 (471)
Q Consensus       353 MD~dG~VPIs~IasFnRVK--~LT~D~~lI~eALr~S~~--LEV~gdkVRRR~~w~  404 (471)
                      ||.+|||+|+.|+. -+.+  ....+.+.|.++++..++  .|+++++||.+....
T Consensus        24 ld~~G~v~v~~LL~-~~~~~~~~~~t~~~l~~vV~~~~K~Rf~l~~~~IRA~qGHS   78 (186)
T 1wfx_A           24 LTREGWARVSEVVE-GLRKAGWSWVEEWHIVGVALHDPKGRYELRNGEIRARYGHS   78 (186)
T ss_dssp             CCTTCCEEHHHHHH-HHHHTTCTTCCHHHHHHHHHHCSSCCEEEETTEEEESSCCS
T ss_pred             cCCCCCEEHHHHHh-hhhhcccCCCCHHHHHHHHhcCCCCceEeeccEEEeccCCC
Confidence            68999999999998 3333  344578899999988754  778899999987654

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=85.59  E-value=0.58  Score=53.07  Aligned_cols=84  Identities=23%  Similarity=0.368  Sum_probs=64.6

Q ss_pred             CcHHHHHHHHhhhhhhcCCCCCCcchHHHHhh--------cCCCcEehhhhccc-cchhcccC--------C----HHHH
Q 039779          322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--------DDQGWVPIRLIAGF-NKVSLLTD--------N----IQLI  380 (471)
Q Consensus       322 ~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--------D~dG~VPIs~IasF-nRVK~LT~--------D----~~lI  380 (471)
                      ..++-.+.|+.+|+|.|||+=|.-+.=|..|+        |--|.||+.+|+.+ -||-.+++        |    +.+|
T Consensus       103 ~~~~~~~~~~~~~~~~f~~e~~~~~~pl~~h~~~~~~r~~~~~~~~p~~~~~~~d~k~~~~ck~~~~~~e~~p~~~~~~~  182 (950)
T 3htx_A          103 TVDEARDEIVGRIKYIFSDEFLSAEHPLGAHLRAALRRDGERCGSVPVSVIATVDAKINSRCKIINPSVESDPFLAISYV  182 (950)
T ss_dssp             CHHHHHHHHHHHHHHHTSTGGGGCSSTHHHHHHHHHTSCGGGTTEECHHHHHHTCHHHHHHHHHHCTHHHHCTHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhhhhhhccCchHHHHHHHHhhcCccccccchhhheehhhhhhhhhhhcCcccccChHHHHHHH
Confidence            45788899999999999999998888777776        24589999999999 45555442        2    4678


Q ss_pred             HHHHhhC-CcEEEcCCeEecCCCCcc
Q 039779          381 LDALRSS-TVVEVQGDRIRKRNDWMR  405 (471)
Q Consensus       381 ~eALr~S-~~LEV~gdkVRRR~~w~k  405 (471)
                      ..|.+.+ ..+..++..|||++++.-
T Consensus       183 ~~a~~~~~~~~~~~~~~~~~~~~~~~  208 (950)
T 3htx_A          183 MKAAAKLADYIVASPHGLRRKNAYPS  208 (950)
T ss_dssp             HHHHHHCCSSEEEETTEEEESSCCCH
T ss_pred             HHHhhcCCCcEEeCCcccccCCCCCH
Confidence            8888777 455456679999987653

---

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	471
d2cqka1	88	a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Hu	4e-32
d1zh5a1	99	a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal	8e-31
d1s29a_	92	a.4.5.46 (A:) Lupus La autoantigen N-terminal doma	5e-27

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  115 bits (290), Expect = 4e-32
 Identities = 30/88 (34%), Positives = 49/88 (55%), Gaps = 4/88 (4%)

Query: 322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLIL 381
               L   +  Q+++ FS ENL KD +L   MD   ++PI  +A   ++  LT +  LIL
Sbjct: 3   STEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLIL 62

Query: 382 DALRSSTVVEV--QGDRIRKRNDWMRWI 407
           + LRSS +V+V  +G+++R  +   R I
Sbjct: 63  EVLRSSPMVQVDEKGEKVRPSHK--RCI 88

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (282), Expect = 8e-31
 Identities = 28/86 (32%), Positives = 54/86 (62%), Gaps = 3/86 (3%)

Query: 325 QLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDA 383
            L ++I  QI+YYF + NL +D FL++ +  D+GWVP+ ++  FN+++ LT +  +I++A
Sbjct: 8   ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 67

Query: 384 LRSST--VVEVQGDRIRKRNDWMRWI 407
           L  S   ++E+  D+ + R    + +
Sbjct: 68  LSKSKAELMEISEDKTKIRRSPSKPL 93

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

 Score =  101 bits (254), Expect = 5e-27
 Identities = 20/84 (23%), Positives = 50/84 (59%), Gaps = 4/84 (4%)

Query: 322 PDPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQL 379
              +   ++  Q+++YFS+ N+ +D FL+  M  + +G+V +  +  F +V+ +T +++ 
Sbjct: 6   LSSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKE 65

Query: 380 ILDALRSSTVVEVQGD--RIRKRN 401
           +++A+R S  + +  D   +R+R+
Sbjct: 66  VVEAIRPSEKLVLSEDGLMVRRRD 89

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	471
d1s29a_	92	Lupus La autoantigen N-terminal domain {Trypanosom	99.95
d2cqka1	88	La-related protein 4 LARP4 {Human (Homo sapiens) [	99.95
d1zh5a1	99	Lupus La autoantigen N-terminal domain {Human (Hom	99.94
d1wfxa_	180	Probable RNA 2'-phosphotransferase KptA {Aeropyrum	91.64

>d1s29a_ a.4.5.46 (A:) Lupus La autoantigen N-terminal domain {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Trypanosoma brucei [TaxId: 5691]

Probab=99.95  E-value=1.1e-29  Score=212.26  Aligned_cols=81  Identities=25%  Similarity=0.586  Sum_probs=75.7

Q ss_pred             cHHHHHHHHhhhhhhcCCCCCCcchHHHHhh--cCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779          323 DPQLHSRIVTQIDYYFSNENLVKDTFLRQNM--DDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR  398 (471)
Q Consensus       323 d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~M--D~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR  398 (471)
                      .++++++|++||||||||+||++|.||+++|  +.||||+|++|++|||||+|+.|+++|++||+.|..|||+  +++||
T Consensus         7 ~~e~~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~~~G~V~i~~i~~F~rmk~lt~d~~~i~~Al~~S~~lev~ed~~~VR   86 (92)
T d1s29a_           7 SSENKQKLQKQVEFYFSDVNVQRDIFLKGKMAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVLSEDGLMVR   86 (92)
T ss_dssp             CHHHHHHHHHHHHHHTSHHHHTTCHHHHHHHTTSTTCCEEHHHHTTSHHHHTTCSCHHHHHHHHTTCSSEEECTTSSEEE
T ss_pred             CHHHHHHHHHHHHHHccHhhhccCHHHHHHHhccCCCcEEhHHHhcCcCHHHhcCCHHHHHHHHhhCCeEEEeCCCCEEe
Confidence            3578899999999999999999999999999  7899999999999999999999999999999999999998  45899


Q ss_pred             cCCCC
Q 039779          399 KRNDW  403 (471)
Q Consensus       399 RR~~w  403 (471)
                      ||.+.
T Consensus        87 Rk~pl   91 (92)
T d1s29a_          87 RRDPL   91 (92)
T ss_dssp             ESSCC
T ss_pred             eCCCC
Confidence            98653

>d2cqka1 a.4.5.46 (A:43-130) La-related protein 4 LARP4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: La-related protein 4 LARP4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=5.4e-30  Score=212.56  Aligned_cols=82  Identities=34%  Similarity=0.626  Sum_probs=77.5

Q ss_pred             CCcHHHHHHHHhhhhhhcCCCCCCcchHHHHhhcCCCcEehhhhccccchhcccCCHHHHHHHHhhCCcEEEc--CCeEe
Q 039779          321 APDPQLHSRIVTQIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEVQ--GDRIR  398 (471)
Q Consensus       321 ~~d~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~~LEV~--gdkVR  398 (471)
                      +..++|+++|++||||||||+||++|.||+++|++||||||++|++|||||+||.|+++|++||+.|..|||+  +.+||
T Consensus         2 v~~~~l~~~i~~QvEfYFSd~NL~~D~fL~~~m~~~G~V~l~~i~~F~r~k~lt~d~~~i~~Al~~S~~lev~~d~~~VR   81 (88)
T d2cqka1           2 VSTEDLKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQVDEKGEKVR   81 (88)
T ss_dssp             CCHHHHHHHHHHHHHHHTSHHHHHHCHHHHHHSCTTSCEEHHHHHHCHHHHHHCCCHHHHHHHHHHSSSEEECSSSSEEE
T ss_pred             CChHHHHHHHHHHHHhhCCHhhhCcCHHHHHhhcCCCCEEhHHHhcChHHHHHcCCHHHHHHHHhcCCeEEEeCCCCEec
Confidence            4568999999999999999999999999999999999999999999999999999999999999999999997  45899


Q ss_pred             cCCC
Q 039779          399 KRND  402 (471)
Q Consensus       399 RR~~  402 (471)
                      ||+.
T Consensus        82 r~~~   85 (88)
T d2cqka1          82 PSHK   85 (88)
T ss_dssp             ECCS
T ss_pred             cCCC
Confidence            9863

>d1zh5a1 a.4.5.46 (A:5-103) Lupus La autoantigen N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: La domain
domain: Lupus La autoantigen N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.9e-28  Score=207.04  Aligned_cols=83  Identities=35%  Similarity=0.736  Sum_probs=74.5

Q ss_pred             HHHHHHHHhhhhhhcCCCCCCcchHHHHhhc-CCCcEehhhhccccchhcccCCHHHHHHHHhhCC--cEEEcCC--eEe
Q 039779          324 PQLHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDALRSST--VVEVQGD--RIR  398 (471)
Q Consensus       324 ~~L~~~I~kQIEYYFSDeNL~kD~FLRs~MD-~dG~VPIs~IasFnRVK~LT~D~~lI~eALr~S~--~LEV~gd--kVR  398 (471)
                      +.|+++|++||||||||+||++|.||+++|+ +||||||++|++|+|||+|+.|+++|++||+.|.  +|||+++  +||
T Consensus         7 ~~l~~~I~~QvEfYFSd~NL~~D~fL~~~m~~~eG~Vpl~~i~~F~r~k~l~~~~~~i~~Al~~S~~~~lev~~d~~~vR   86 (99)
T d1zh5a1           7 AALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKSKAELMEISEDKTKIR   86 (99)
T ss_dssp             HHHHHHHHHHHHHHTSTTTGGGCHHHHHHHTTTTTCEEHHHHTTSHHHHHHCCCHHHHHHHHHTCSSCCEEECTTSSEEE
T ss_pred             HHHHHHHHHHHHHhcCHhhhccCHHHHHHHhcCCCcccHHHHhcchHHHHHcCCHHHHHHHHHhCCCCeEEEcCCCceeC
Confidence            5789999999999999999999999999999 6999999999999999999999999999999997  5999754  677


Q ss_pred             cCCCCccccC
Q 039779          399 KRNDWMRWIM  408 (471)
Q Consensus       399 RR~~w~kwvl  408 (471)
                      |+  |.+|+.
T Consensus        87 R~--~~~plp   94 (99)
T d1zh5a1          87 RS--PSKPLP   94 (99)
T ss_dssp             EC--TTSCCC
T ss_pred             CC--CCCCCC
Confidence            75  445543

>d1wfxa_ d.166.1.5 (A:) Probable RNA 2'-phosphotransferase KptA {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a+b)
fold: ADP-ribosylation
superfamily: ADP-ribosylation
family: Tpt1/KptA
domain: Probable RNA 2'-phosphotransferase KptA
species: Aeropyrum pernix [TaxId: 56636]

Probab=91.64  E-value=0.072  Score=47.31  Aligned_cols=52  Identities=13%  Similarity=0.162  Sum_probs=41.2

Q ss_pred             hcCCCcEehhhhccccchhccc-CCHHHHHHHHhhCC--cEEEcCCeEecCCCCc
Q 039779          353 MDDQGWVPIRLIAGFNKVSLLT-DNIQLILDALRSST--VVEVQGDRIRKRNDWM  404 (471)
Q Consensus       353 MD~dG~VPIs~IasFnRVK~LT-~D~~lI~eALr~S~--~LEV~gdkVRRR~~w~  404 (471)
                      ||.||||+|+.|+...+.+.+. .+.+.|.+.+++.+  -.|+++++||......
T Consensus        22 ~d~~G~v~v~dLl~~~~~~~~~~~~~~~i~~iV~~d~K~Rfel~~~~IRA~qGHS   76 (180)
T d1wfxa_          22 LTREGWARVSEVVEGLRKAGWSWVEEWHIVGVALHDPKGRYELRNGEIRARYGHS   76 (180)
T ss_dssp             CCTTCCEEHHHHHHHHHHTTCTTCCHHHHHHHHHHCSSCCEEEETTEEEESSCCS
T ss_pred             cCCCCCEEHHHHHHHHHHcCCCcCcHHHHHHHHhcCCcccceecCCEEEeecCCC
Confidence            7899999999998776666554 46788888888765  4688899999986544