Psyllid ID: psy13898

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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-----
Protein Sequence
MTVPQGSYKTSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQGSAL
Secondary Structure (PSIPRED)
ccccccccccccccEEEEEEEEEcEEEEEEcccccccEEEEEEEcccccccEEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHcccccccccEEEEEccccccEEcEEEccEEEcEEEEEEEEcEEEccccccHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccEEEEEEEcEEEEEEcccccccEEEEEEEccccccHEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHcccEEEccccEEEEEccccccccEEEEcccEccccccEEEEccccccccccHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
mtvpqgsyktsslniqddrstgflqdievtgdkddskcLHVTIQktnagpltqakfIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLldlpssvqpcpspplytlrgqINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAivmngttlkqvDHFKYLGsiisedgtidKEINRRIQQGSAL
Flexible Loop (DISEMBL)
mtvpqgsyktsslniqddrstgFLQDIEVTGDKDDSKCLHVTiqktnagpltqAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAivmngttlkqvdHFKYLGsiisedgtidkEINRRIQQGSAL
Low Complexity Region (SEG)
MTVPQGSYKTSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQGSAL
Disordered region (IsUnstruct)
***********************LQDIEVTG***DSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLP**VQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTI**************
Disordered Region (DISOPRED)
*************NIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMA************RL*KMQQIAKLLDLPSSVQPC****LYTLRGQINEWVTVANE*****************EEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQG***
Disordered Region (DISEMBL)
************LNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQGSAL
Disordered Region (DISPRO)
******SYKTSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQGS**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTVPQGSYKTSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDGTIDKEINRRIQQGSAL
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	185	2.2.26 [Sep-21-2011]
Q2KHT3	1053	Protein CLEC16A OS=Homo s	yes	N/A	0.405	0.071	0.566	7e-19
Q80U30	1036	Protein CLEC16A OS=Mus mu	yes	N/A	0.405	0.072	0.554	1e-18
P46578	892	Uncharacterized protein g	yes	N/A	0.405	0.084	0.512	2e-15

>sp|Q2KHT3|CL16A_HUMAN Protein CLEC16A OS=Homo sapiens GN=CLEC16A PE=2 SV=2

 Score = 93.6 bits (231), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 47/83 (56%), Positives = 59/83 (71%), Gaps = 8/83 (9%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQKTNAGP------LTQAKFIFDDHIRCMAAKQRLNRGR 75
           G LQD++VTG +DDS+ L++TI K  + P      + QA FIF DHIRC+ AKQRL +GR
Sbjct: 753 GLLQDMQVTGVEDDSRALNITIHKPASSPHSKPFPILQATFIFSDHIRCIIAKQRLAKGR 812

Query: 76  TQARLAKMQQIAKLLDLPSSVQP 98
            QAR  KMQ+IA LLDLP  +QP
Sbjct: 813 IQARRMKMQRIAALLDLP--IQP 833

Homo sapiens (taxid: 9606)

>sp|Q80U30|CL16A_MOUSE Protein CLEC16A OS=Mus musculus GN=Clec16a PE=2 SV=2

 Score = 93.2 bits (230), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 46/83 (55%), Positives = 59/83 (71%), Gaps = 8/83 (9%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQKTNAGP------LTQAKFIFDDHIRCMAAKQRLNRGR 75
           G LQD++VTG +DDS+ L++TI K  + P      + QA F+F DHIRC+ AKQRL +GR
Sbjct: 737 GLLQDMQVTGVEDDSRALNITIHKPASSPHSKPFPILQATFVFSDHIRCIIAKQRLAKGR 796

Query: 76  TQARLAKMQQIAKLLDLPSSVQP 98
            QAR  KMQ+IA LLDLP  +QP
Sbjct: 797 IQARRMKMQRIAALLDLP--IQP 817

Mus musculus (taxid: 10090)

>sp|P46578|GOP1_CAEEL Uncharacterized protein gop-1 OS=Caenorhabditis elegans GN=gop-1 PE=2 SV=1

 Score = 82.4 bits (202), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 41/80 (51%), Positives = 49/80 (61%), Gaps = 5/80 (6%)

Query: 19  RSTGFLQDIEVTGDKDDSKCLHVTIQKTNA-----GPLTQAKFIFDDHIRCMAAKQRLNR 73
           R  G LQD  + GD  DSK LHV ++   +      P+  AKFIFDDHIRCMAAKQRL +
Sbjct: 739 RFVGLLQDTTINGDSTDSKVLHVVVEGQPSRIKKRHPVLTAKFIFDDHIRCMAAKQRLTK 798

Query: 74  GRTQARLAKMQQIAKLLDLP 93
           GR  AR  K+Q I   L +P
Sbjct: 799 GRQTARGLKLQAICSALGVP 818

Caenorhabditis elegans (taxid: 6239)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	185
307169338	1570	Protein CLEC16A [Camponotus floridanus]	0.508	0.059	0.64	5e-30
307201532	1074	Protein CLEC16A [Harpegnathos saltator]	0.497	0.085	0.632	1e-28
332029106	1008	Protein CLEC16A [Acromyrmex echinatior]	0.475	0.087	0.638	5e-28
350398306	1007	PREDICTED: protein CLEC16A-like [Bombus	0.540	0.099	0.594	2e-27
340724999	1007	PREDICTED: protein CLEC16A-like [Bombus	0.540	0.099	0.594	2e-27
66523953	1005	PREDICTED: protein CLEC16A-like [Apis me	0.540	0.099	0.594	2e-27
380021058	1005	PREDICTED: protein CLEC16A [Apis florea]	0.540	0.099	0.594	4e-27
345487044	882	PREDICTED: LOW QUALITY PROTEIN: protein	0.464	0.097	0.619	2e-26
383865651	1003	PREDICTED: protein CLEC16A [Megachile ro	0.562	0.103	0.563	3e-26
270011483	968	hypothetical protein TcasGA2_TC005512 [T	0.437	0.083	0.636	4e-24

>gi|307169338|gb|EFN62059.1| Protein CLEC16A [Camponotus floridanus]

 Score =  135 bits (341), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 64/100 (64%), Positives = 75/100 (75%), Gaps = 6/100 (6%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIRCMAAKQRLNRGR 75
           GFLQDI+V GDKDDS+CLH+TI K       N  PL  AKFIFDDHIRCMAAKQRL +GR
Sbjct: 762 GFLQDIDVAGDKDDSRCLHLTIYKPLNSSTGNRIPLLSAKFIFDDHIRCMAAKQRLTKGR 821

Query: 76  TQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWV 115
            +AR  KM QIA+LLD+P+SV  CP+PP Y LRG  +E +
Sbjct: 822 IKARQKKMNQIARLLDIPTSVPHCPTPPNYALRGLRHERI 861

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307201532|gb|EFN81295.1| Protein CLEC16A [Harpegnathos saltator]

 Score =  131 bits (330), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 62/98 (63%), Positives = 73/98 (74%), Gaps = 6/98 (6%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIRCMAAKQRLNRGR 75
           GFLQDI+V GDKDDS+CLH+TI K       N  PL  AKF+FDDHIRCMAAKQRL +GR
Sbjct: 834 GFLQDIDVAGDKDDSRCLHLTIYKPLSSSTGNRIPLLSAKFVFDDHIRCMAAKQRLTKGR 893

Query: 76  TQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINE 113
            +AR  KM QIA+LLD+P+SV  C +PP Y LRG  +E
Sbjct: 894 IKARQKKMNQIARLLDIPTSVPHCSTPPNYALRGLRHE 931

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332029106|gb|EGI69119.1| Protein CLEC16A [Acromyrmex echinatior]

 Score =  129 bits (324), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 60/94 (63%), Positives = 71/94 (75%), Gaps = 6/94 (6%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIRCMAAKQRLNRGR 75
           GFLQDI+VTGDKDDS+CL++TI K       N  PL  AKFIFDDHIRCMAAKQRL +GR
Sbjct: 763 GFLQDIDVTGDKDDSRCLYLTIYKPLSNSTGNRIPLLSAKFIFDDHIRCMAAKQRLTKGR 822

Query: 76  TQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
            +AR  KM QIA+LLD+P+S+  C +PP Y LR 
Sbjct: 823 IKARQKKMNQIARLLDIPTSISHCSTPPNYALRS 856

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350398306|ref|XP_003485154.1| PREDICTED: protein CLEC16A-like [Bombus impatiens]

 Score =  127 bits (319), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 73/106 (68%), Gaps = 6/106 (5%)

Query: 10  TSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIR 63
           TS L     +  GFLQDIEV GDKDDS+CLH+TI K       N  PL   KFIFDDHIR
Sbjct: 748 TSKLGWGVAKLVGFLQDIEVAGDKDDSRCLHLTIYKPLSSSTGNRVPLLSTKFIFDDHIR 807

Query: 64  CMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
           CMAAKQRL +GR +AR  KM QIA+LLD+P+S+    +PP Y LRG
Sbjct: 808 CMAAKQRLTKGRIKARQKKMNQIARLLDIPTSIPHATTPPNYALRG 853

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340724999|ref|XP_003400863.1| PREDICTED: protein CLEC16A-like [Bombus terrestris]

 Score =  127 bits (319), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 73/106 (68%), Gaps = 6/106 (5%)

Query: 10  TSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIR 63
           TS L     +  GFLQDIEV GDKDDS+CLH+TI K       N  PL   KFIFDDHIR
Sbjct: 748 TSKLGWGVAKLVGFLQDIEVAGDKDDSRCLHLTIYKPLSSSTGNRVPLLSTKFIFDDHIR 807

Query: 64  CMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
           CMAAKQRL +GR +AR  KM QIA+LLD+P+S+    +PP Y LRG
Sbjct: 808 CMAAKQRLTKGRIKARQKKMNQIARLLDIPTSIPHATTPPNYALRG 853

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66523953|ref|XP_393990.2| PREDICTED: protein CLEC16A-like [Apis mellifera]

 Score =  127 bits (319), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 73/106 (68%), Gaps = 6/106 (5%)

Query: 10  TSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIR 63
           TS L     +  GFLQDIEV GDKDDS+CLH+TI K       N  PL   KFIFDDHIR
Sbjct: 746 TSKLGWGVAKLVGFLQDIEVAGDKDDSRCLHLTIYKPLSSTTGNRVPLLSTKFIFDDHIR 805

Query: 64  CMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
           CMAAKQRL +GR +AR  KM QIA+LLD+P+S+    +PP Y LRG
Sbjct: 806 CMAAKQRLTKGRIKARQKKMTQIARLLDIPTSIPHATTPPNYALRG 851

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380021058|ref|XP_003694391.1| PREDICTED: protein CLEC16A [Apis florea]

 Score =  126 bits (316), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 63/106 (59%), Positives = 73/106 (68%), Gaps = 6/106 (5%)

Query: 10  TSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIR 63
           TS L     +  GFLQDIEV GDKDDS+CLH+TI K       N  PL   KFIFDDHIR
Sbjct: 747 TSKLGWGVAKLVGFLQDIEVAGDKDDSRCLHLTIYKPLSSSTGNRVPLLSTKFIFDDHIR 806

Query: 64  CMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
           CMAAKQRL +GR +AR  KM QIA+LLD+P+S+    +PP Y LRG
Sbjct: 807 CMAAKQRLTKGRIKARQKKMTQIARLLDIPTSMPHATTPPNYALRG 852

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345487044|ref|XP_003425612.1| PREDICTED: LOW QUALITY PROTEIN: protein CLEC16A-like [Nasonia vitripennis]

 Score =  124 bits (311), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 57/92 (61%), Positives = 68/92 (73%), Gaps = 6/92 (6%)

Query: 22  GFLQDIEVTGDKDDSKCLHVTIQK------TNAGPLTQAKFIFDDHIRCMAAKQRLNRGR 75
           GFLQDIEV GDKDDS+CLH+TI K      +N  PL   KFIFDDHIRCMAAKQRL +GR
Sbjct: 634 GFLQDIEVAGDKDDSRCLHLTIHKPLGSSASNRVPLLSTKFIFDDHIRCMAAKQRLTKGR 693

Query: 76  TQARLAKMQQIAKLLDLPSSVQPCPSPPLYTL 107
            +AR  KM +IA+LLD+ ++   CP+PP Y L
Sbjct: 694 IRARQKKMSRIARLLDITTTAPHCPTPPNYAL 725

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383865651|ref|XP_003708286.1| PREDICTED: protein CLEC16A [Megachile rotundata]

 Score =  123 bits (309), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 62/110 (56%), Positives = 74/110 (67%), Gaps = 6/110 (5%)

Query: 10  TSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIR 63
           TS L     +  GFLQDIEV GDKDDS+CLH+TI K       N  PL   KFIFDDHIR
Sbjct: 747 TSKLGWGVAKLVGFLQDIEVAGDKDDSRCLHLTIYKPLSSTTGNRVPLLSTKFIFDDHIR 806

Query: 64  CMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINE 113
           C+AAKQRL +GR +AR  KM QIA+LLD+P+S+    +PP Y LR   +E
Sbjct: 807 CLAAKQRLTKGRIKARQKKMNQIARLLDIPTSIPHSATPPNYALRSLRHE 856

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270011483|gb|EFA07931.1| hypothetical protein TcasGA2_TC005512 [Tribolium castaneum]

 Score =  116 bits (291), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 56/88 (63%), Positives = 66/88 (75%), Gaps = 7/88 (7%)

Query: 21  TGFLQDIEVTGDKDDSKCLHVTIQK------TNAGPLTQAKFIFDDHIRCMAAKQRLNRG 74
            GFLQDIEVTGDKDDS+CLH+TI +      TN  PL  AKF+FDD+IRCMAAKQRL +G
Sbjct: 721 VGFLQDIEVTGDKDDSRCLHITIHRPLSGTTTNRVPLLSAKFVFDDNIRCMAAKQRLTKG 780

Query: 75  RTQARLAKMQQIAKLLDLPSSVQPCPSP 102
           R +AR  KMQ IA+LL++P    P PSP
Sbjct: 781 RIKARQKKMQHIARLLEIPGQSGP-PSP 807

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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	185
FB|FBgn0038427	1067	ema "endosomal maturation defe	0.454	0.078	0.554	2.7e-21
RGD|1305773	881	Clec16a "C-type lectin domain	0.405	0.085	0.554	2.1e-16
MGI|MGI:1921624	1036	Clec16a "C-type lectin domain	0.405	0.072	0.554	2.7e-16
ZFIN|ZDB-GENE-040426-951	1044	clec16a "C-type lectin domain	0.405	0.071	0.554	1.5e-15

FB|FBgn0038427 ema "endosomal maturation defective" [Drosophila melanogaster (taxid:7227)]

 Score = 262 (97.3 bits), Expect = 2.7e-21, P = 2.7e-21
 Identities = 51/92 (55%), Positives = 67/92 (72%)

Query:    22 GFLQDIEVTGDKDDSKCLHVTIQKT----NAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQ 77
             GFLQD+EV GDKDDS+CLH+T+ +     N  PL  AKF+FDDHIRCMAAKQRL +GR++
Sbjct:   746 GFLQDVEVQGDKDDSRCLHITVHRGGVTHNRTPLLSAKFLFDDHIRCMAAKQRLTKGRSK 805

Query:    78 ARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRG 109
             AR  KM QIA+L+++P  +      P+Y + G
Sbjct:   806 ARQKKMYQIAQLIEIPGQMDS----PVYAVGG 833

GO:0008333 "endosome to lysosome transport" evidence=IMP

GO:0016197 "endosomal transport" evidence=IGI

GO:0005770 "late endosome" evidence=IDA

GO:0016021 "integral to membrane" evidence=IDA

RGD|1305773 Clec16a "C-type lectin domain family 16, member A" [Rattus norvegicus (taxid:10116)]

 Score = 215 (80.7 bits), Expect = 2.1e-16, P = 2.1e-16
 Identities = 46/83 (55%), Positives = 59/83 (71%)

Query:    22 GFLQDIEVTGDKDDSKCLHVTIQKTNAGP------LTQAKFIFDDHIRCMAAKQRLNRGR 75
             G LQD++VTG +DDS+ L++TI K  + P      + QA F+F DHIRC+ AKQRL +GR
Sbjct:   751 GLLQDMQVTGVEDDSRALNITIHKPASSPHSKPFPILQATFVFSDHIRCIIAKQRLAKGR 810

Query:    76 TQARLAKMQQIAKLLDLPSSVQP 98
              QAR  KMQ+IA LLDLP  +QP
Sbjct:   811 IQARRMKMQRIAALLDLP--IQP 831

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

MGI|MGI:1921624 Clec16a "C-type lectin domain family 16, member A" [Mus musculus (taxid:10090)]

 Score = 215 (80.7 bits), Expect = 2.7e-16, P = 2.7e-16
 Identities = 46/83 (55%), Positives = 59/83 (71%)

Query:    22 GFLQDIEVTGDKDDSKCLHVTIQKTNAGP------LTQAKFIFDDHIRCMAAKQRLNRGR 75
             G LQD++VTG +DDS+ L++TI K  + P      + QA F+F DHIRC+ AKQRL +GR
Sbjct:   737 GLLQDMQVTGVEDDSRALNITIHKPASSPHSKPFPILQATFVFSDHIRCIIAKQRLAKGR 796

Query:    76 TQARLAKMQQIAKLLDLPSSVQP 98
              QAR  KMQ+IA LLDLP  +QP
Sbjct:   797 IQARRMKMQRIAALLDLP--IQP 817

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-040426-951 clec16a "C-type lectin domain family 16, member A" [Danio rerio (taxid:7955)]

 Score = 208 (78.3 bits), Expect = 1.5e-15, P = 1.5e-15
 Identities = 46/83 (55%), Positives = 58/83 (69%)

Query:    22 GFLQDIEVTGDKDDSKCLHVTIQKTNAGP------LTQAKFIFDDHIRCMAAKQRLNRGR 75
             G LQD++V+G +DDS+ L++ I K  + P      + QA FIF DHIRC+ AKQRL +GR
Sbjct:   744 GLLQDMQVSGVEDDSRALNIIIHKPTSNPHAKPMPILQANFIFADHIRCIIAKQRLAKGR 803

Query:    76 TQARLAKMQQIAKLLDLPSSVQP 98
              QAR  KMQ+IA LLDLP  VQP
Sbjct:   804 IQARRMKMQRIAALLDLP--VQP 824


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.316   0.132   0.376    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      185       185   0.00080  110 3  11 22  0.46    32
                                                     31  0.41    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  4
  No. of states in DFA:  584 (62 KB)
  Total size of DFA:  150 KB (2091 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:01
  No. of threads or processors used:  24
  Search cpu time:  18.17u 0.08s 18.25t   Elapsed:  00:00:09
  Total cpu time:  18.17u 0.08s 18.25t   Elapsed:  00:00:10
  Start:  Thu Aug 15 15:02:43 2013   End:  Thu Aug 15 15:02:53 2013

GO:0005575 "cellular_component" evidence=ND

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q2KHT3	CL16A_HUMAN	No assigned EC number	0.5662	0.4054	0.0712	yes	N/A
P46578	GOP1_CAEEL	No assigned EC number	0.5125	0.4054	0.0840	yes	N/A
Q80U30	CL16A_MOUSE	No assigned EC number	0.5542	0.4054	0.0723	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	185
cd01650	220	cd01650, RT_nLTR_like, RT_nLTR: Non-LTR (long term	4e-08

>gnl|CDD|238827 cd01650, RT_nLTR_like, RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT)

 Score = 50.8 bits (122), Expect = 4e-08
 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 3/60 (5%)

Query: 106 TLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSII 165
            L  ++ EW   + E GLK +  KS+V+++  +++    I +NGT ++ V+ FKYLG  I
Sbjct: 164 ELLQRLQEW---SKESGLKINPSKSKVMLIGNKKKRLKDITLNGTPIEAVETFKYLGVTI 220

This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities. Length = 220

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	185
KOG2219|consensus	864		99.95
cd01650	220	RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea	98.72
cd03487	214	RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr	98.16
PF00078	214	RVT_1: Reverse transcriptase (RNA-dependent DNA po	98.02
cd01646	158	RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip	97.98
cd01651	226	RT_G2_intron RT_G2_intron: Reverse transcriptases	97.92
cd01648	119	TERT TERT: Telomerase reverse transcriptase (TERT)	97.77
cd00304	98	RT_like RT_like: Reverse transcriptase (RT, RNA-de	97.39
cd03714	119	RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc	96.18
cd01645	213	RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r	96.0
cd01709	346	RT_like_1 RT_like_1: A subfamily of reverse transc	95.36
cd03715	210	RT_ZFREV_like RT_ZFREV_like: A subfamily of revers	94.74
cd01647	177	RT_LTR RT_LTR: Reverse transcriptases (RTs) from r	90.6

>KOG2219|consensus

Probab=99.95  E-value=4.3e-28  Score=224.52  Aligned_cols=88  Identities=51%  Similarity=0.762  Sum_probs=83.9

Q ss_pred             CCCCcccceeeeeeceeceeeEEecccCCCceEEEEeccC------CCCCcccchhhHHHHHHHHHHHHHhhhhhhhHHH
Q psy13898          7 SYKTSSLNIQDDRSTGFLQDIEVTGDKDDSKCLHVTIQKT------NAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARL   80 (185)
Q Consensus         7 ~~~~~~~gw~~~~~~~~lqd~~~~~d~~dsr~l~i~i~~~------~~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~   80 (185)
                      .-|++++|||++||+|+|||.+|.||++|||+|||+||..      ...|++.|+|+||||||||+|||||+|||++||+
T Consensus       700 ePd~kr~gw~vvkf~Gllqd~~i~g~~dDsr~lhitv~~~ag~i~~r~~pvl~a~fif~DhiRcm~akQrltkgr~~ar~  779 (864)
T KOG2219|consen  700 EPDTKRLGWGVVKFVGLLQDRWILGDRDDSRSLHITVHMVAGEIHLRCSPVLRAKFIFDDHIRCMAAKQRLTKGRQTARG  779 (864)
T ss_pred             ccchhhcchheeeeeeeecceEEecccCcccceeEEEeccCCccccccchHHhhhccchHHHHHHHHHhHhhhhhHHHHH
Confidence            4589999999999999999999999999999999999993      2599999999999999999999999999999999


Q ss_pred             HHHHHhhhhcCCCC
Q psy13898         81 AKMQQIAKLLDLPS   94 (185)
Q Consensus        81 ~k~~~~a~~l~i~~   94 (185)
                      .||++||.+|++|+
T Consensus       780 ~kmq~ia~ll~vp~  793 (864)
T KOG2219|consen  780 LKMQAIASLLGVPR  793 (864)
T ss_pred             HHHHHHHHHhCCCC
Confidence            99999999999985

>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT)

Probab=98.72  E-value=7.4e-09  Score=84.09  Aligned_cols=132  Identities=21%  Similarity=0.206  Sum_probs=86.1

Q ss_pred             eeEEecccCCCceEEEEeccCCCCCcccchhhHHHHHHHHHHHHHhh-hhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCc
Q psy13898         26 DIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLN-RGRTQARLAKMQQIAKLLDLPSSVQPCPSPPL  104 (185)
Q Consensus        26 d~~~~~d~~dsr~l~i~i~~~~~~~~~~a~f~F~d~i~c~~akq~l~-~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~  104 (185)
                      |++-.+|.-+...|.-.+  |.++..-.++++|.-.+..+...-.-. +...........+||||+.+....   +   .
T Consensus        88 Di~~aFdsi~~~~l~~~l--GipQG~~lSp~l~~l~~~~l~~~~~~~~~~~~~~~~~~~~~yaDD~~i~~~~---~---~  159 (220)
T cd01650          88 DFEKAFDSVDHEFLLKAL--GVRQGDPLSPLLFNLALDDLLRLLNKEEEIKLGGPGITHLAYADDIVLFSEG---K---S  159 (220)
T ss_pred             EHHhhcCcCCHHHHHHHh--CCccCCcccHHHHHHHHHHHHHHHHhhccccCCCCccceEEeccceeeeccC---C---H
Confidence            666666654432221111  333333344444555555552211100 011123357789999999985421   1   1


Q ss_pred             hhhhhHHHHHHHHHhhhCCccCcccceeeeccccccccceEEECCeeccccceeEeeccee
Q psy13898        105 YTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSII  165 (185)
Q Consensus       105 ~~Lq~~l~~L~~~s~~~GL~IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~I  165 (185)
                      ..++..++.+..|+.+.||++|++||+++.++........+.+++..+..++.|+|||..+
T Consensus       160 ~~~~~~~~~~~~~~~~~gl~in~~Kt~~~~~~~~~~~~~~~~~~~~~~~~~~~~kyLG~~i  220 (220)
T cd01650         160 RKLQELLQRLQEWSKESGLKINPSKSKVMLIGNKKKRLKDITLNGTPIEAVETFKYLGVTI  220 (220)
T ss_pred             HHHHHHHHHHHHHHHHcCCEEChhheEEEEecCCCcchhhhhhcCCcccCCCCCeeccccC
Confidence            4799999999999999999999999999998876544455788999999999999999753

This subfamily contains both non-LTR retrotransposons and non-LTR retrovirus RTs. RTs catalyze the conversion of single-stranded RNA into double-stranded DNA for integration into host chromosomes. RT is a multifunctional enzyme with RNA-directed DNA polymerase, DNA directed DNA polymerase and ribonuclease hybrid (RNase H) activities.

>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons

Probab=98.16  E-value=3.1e-06  Score=69.79  Aligned_cols=79  Identities=13%  Similarity=0.141  Sum_probs=60.7

Q ss_pred             HHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCcccceeeeccccccccceEEECCeeccccceeE
Q psy13898         80 LAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFK  159 (185)
Q Consensus        80 ~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~Fk  159 (185)
                      ..+..+||||+.+...   ++..  .++++.++.+..++++.||.+|++||+++...                   +.+.
T Consensus       134 ~~~~~RYaDD~~i~~~---~~~~--~~~~~~~~~i~~~l~~~gL~ln~~Kt~i~~~~-------------------~~~~  189 (214)
T cd03487         134 GLTYTRYADDITFSSN---KKLK--EALDKLLEIIRSILSEEGFKINKSKTRISSKG-------------------SRQI  189 (214)
T ss_pred             CCeEEEEeccEEEEcc---ccch--hHHHHHHHHHHHHHHHCCceeCCCceEEccCC-------------------CCcE
Confidence            4567899999988532   2210  26899999999999999999999999998742                   3478


Q ss_pred             eecceecCC-CCCHHHHHHHHHhh
Q psy13898        160 YLGSIISED-GTIDKEINRRIQQG  182 (185)
Q Consensus       160 YLGs~Is~d-~~~~~eI~~RI~~A  182 (185)
                      +||-.|+.+ .....+..+||+.+
T Consensus       190 ~~G~~i~~~~~~~~~~~~~~i~~~  213 (214)
T cd03487         190 VTGLVVNNGKPSLPRKEKRKIRAL  213 (214)
T ss_pred             EEEEEEeCCcCCCCHHHHHHHHhh
Confidence            899888865 56777888887653

The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.

>PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons

Probab=98.02  E-value=2.1e-06  Score=68.44  Aligned_cols=60  Identities=22%  Similarity=0.299  Sum_probs=48.8

Q ss_pred             HHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCcccceeeeccccccccceEEECCeeccccceeE
Q psy13898         80 LAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFK  159 (185)
Q Consensus        80 ~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~Fk  159 (185)
                      .....++|||+.+.   +.+++    +++..++.+.++++++||++|++||+.+.                   ..+.++
T Consensus       155 ~~~~~rY~DD~~i~---~~~~~----~~~~~~~~i~~~~~~~gl~ln~~Kt~~~~-------------------~~~~~~  208 (214)
T PF00078_consen  155 DISYLRYADDILII---SKSKE----ELQKILEKISQWLEELGLKLNPEKTKILH-------------------PSDSVK  208 (214)
T ss_dssp             TSEEEEETTEEEEE---ESSHH----HHHHHHHHHHHHHHHTTSBCSSTTTSCS---------------------ESSEE
T ss_pred             cccceEeccccEEE---ECCHH----HHHHHHHHHHHHHHHCCCEEChHHEEEEe-------------------CCCCEE
Confidence            45578999999984   33344    79999999999999999999999999875                   457789


Q ss_pred             eeccee
Q psy13898        160 YLGSII  165 (185)
Q Consensus       160 YLGs~I  165 (185)
                      |||-.|
T Consensus       209 ~lG~~i  214 (214)
T PF00078_consen  209 FLGYVI  214 (214)
T ss_dssp             ETTEEE
T ss_pred             EEeEEC
Confidence            999765

The enzyme catalysing polymerisation is an RNA-directed DNA-polymerase, or reverse trancriptase (RT) (2.7.7.49 from EC). Reverse transcriptase occurs in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. Retroviral reverse transcriptase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The discovery of retroelements in the prokaryotes raises intriguing questions concerning their roles in bacteria and the origin and evolution of reverse transcriptases and whether the bacterial reverse transcriptases are older than eukaryotic reverse transcriptases [].; GO: 0003723 RNA binding, 0003964 RNA-directed DNA polymerase activity, 0006278 RNA-dependent DNA replication; PDB: 1MU2_B 3RWE_C 3DU6_B 3DU5_A 3KYL_A 2WOM_B 1DTQ_A 2OPS_A 3FFI_A 1VRU_B ....

>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons

Probab=97.98  E-value=1.7e-06  Score=68.20  Aligned_cols=98  Identities=11%  Similarity=0.093  Sum_probs=68.3

Q ss_pred             ceEEEEeccCC-CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHH
Q psy13898         37 KCLHVTIQKTN-AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWV  115 (185)
Q Consensus        37 r~l~i~i~~~~-~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~  115 (185)
                      ......++||. .+|++...|++  ++.-.. ++.       .+...+.+||||+.+..   .++    ..+++.++.+.
T Consensus        48 ~~~~~GlpqG~~lS~~L~~~~l~--~~d~~i-~~~-------~~~~~~~RY~DD~~i~~---~~~----~~~~~~~~~i~  110 (158)
T cd01646          48 YGQTNGLPIGPLTSRFLANIYLN--DVDHEL-KSK-------LKGVDYVRYVDDIRIFA---DSK----EEAEEILEELK  110 (158)
T ss_pred             CCCCceEccCcchHHHHHHHHHH--HHHHHH-Hhc-------cCCceEEEecCcEEEEc---CCH----HHHHHHHHHHH
Confidence            33445566653 56666666552  233221 111       34677899999999853   222    37899999999


Q ss_pred             HHHhhhCCccCcccceeeeccccccccceEEECCeeccccceeEeecceecC
Q psy13898        116 TVANEYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISE  167 (185)
Q Consensus       116 ~~s~~~GL~IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~  167 (185)
                      +++++.||.+|++||+++.+....                .+|.+||..+..
T Consensus       111 ~~l~~~gL~ln~~Kt~~~~~~~~~----------------~~~~flg~~~~~  146 (158)
T cd01646         111 EFLAELGLSLNLSKTEILPLPEGT----------------ASKDFLGYRFSP  146 (158)
T ss_pred             HHHHHCCCEEChhhceeeecCCCC----------------ccccccceEeeh
Confidence            999999999999999998865421                679999998874

The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA branches out from a small ssRNA molecule via a 2'-5'phosphodiester linkage. Bacterial retron RTs produce cDNA corresponding to only a small portion of the retron genome.

>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin

Probab=97.92  E-value=4.5e-06  Score=67.73  Aligned_cols=94  Identities=14%  Similarity=0.186  Sum_probs=62.8

Q ss_pred             CCCCCcccchhhHHHHHHHHH--HHHHhhh----hhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHh
Q psy13898         46 TNAGPLTQAKFIFDDHIRCMA--AKQRLNR----GRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVAN  119 (185)
Q Consensus        46 ~~~~~~~~a~f~F~d~i~c~~--akq~l~~----gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~  119 (185)
                      |.++....++++|.-.+..+-  ..+.+..    +..........+||||+.+..+   +++    .++..++.+.+|++
T Consensus       126 GlpqG~~lSp~L~~~~l~~ld~~l~~~~~~~~~~~~~~~~~~~~~rY~DD~~i~~~---~~~----~~~~~~~~i~~~~~  198 (226)
T cd01651         126 GTPQGGVISPLLANIYLHELDKFVEEKLKEYYDTSDPKFRRLRYVRYADDFVIGVR---GPK----EAEEIKELIREFLE  198 (226)
T ss_pred             CcCCCccHHHHHHHHHHHHHHHHHHHhhhhcccccccccCceEEEEecCceEEecC---CHH----HHHHHHHHHHHHHH
Confidence            444555556666666656551  1111111    0112234667899999999542   223    58999999999999


Q ss_pred             hhCCccCcccceeeeccccccccceEEECCeeccccceeEeecce
Q psy13898        120 EYGLKFSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSI  164 (185)
Q Consensus       120 ~~GL~IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~  164 (185)
                      +.||.+|.+||+++.++                  .+.|.|||-.
T Consensus       199 ~~gl~ln~~Kt~i~~~~------------------~~~~~fLG~~  225 (226)
T cd01651         199 ELGLELNPEKTRITHFK------------------SEGFDFLGFT  225 (226)
T ss_pred             HcCCeechhhcceeecC------------------CCCCeeCCeE
Confidence            99999999999998764                  3568888854

RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable element with both gag-like and pol-like genes. This subfamily of proteins appears to have captured the RT sequences from transposable elements, which lack long terminal repeats (LTRs).

>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT)

Probab=97.77  E-value=8.7e-06  Score=61.67  Aligned_cols=99  Identities=10%  Similarity=0.020  Sum_probs=59.8

Q ss_pred             CCCCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHH-hhhCCc
Q psy13898         46 TNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVA-NEYGLK  124 (185)
Q Consensus        46 ~~~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s-~~~GL~  124 (185)
                      |.+++...++++|.-.+.-+- +...+............+||||+.+.   ++++.    +.++.++.+.++. +++||+
T Consensus        19 GlpQG~~lSp~L~nl~l~~l~-~~~~~~~~~~~~~~~~~rYaDD~li~---~~~~~----~~~~~~~~l~~~l~~~~gl~   90 (119)
T cd01648          19 GIPQGSPLSSLLCSLYYADLE-NKYLSFLDVIDKDSLLLRLVDDFLLI---TTSLD----KAIKFLNLLLRGFINQYKTF   90 (119)
T ss_pred             cccCCcchHHHHHHHHHHHHH-HHHHhhcccCCCCceEEEEeCcEEEE---eCCHH----HHHHHHHHHHHhhHHhhCeE
Confidence            444444445555555555442 12112111112234468999998774   23333    7899999999997 999999


Q ss_pred             cCcccceeeeccccccccceEEECCeeccccceeEeeccee
Q psy13898        125 FSAEKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSII  165 (185)
Q Consensus       125 IN~~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~I  165 (185)
                      +|.+||++-....             ....-+.|.|||-.|
T Consensus        91 iN~~Kt~~~~~~~-------------~~~~~~~~~flG~~i  118 (119)
T cd01648          91 VNFDKTQINFSFA-------------QLDSSDLIPWCGLLI  118 (119)
T ss_pred             ECcccceeecccc-------------ccCCCCccCceeEee
Confidence            9999999753211             011124589999765

Telomerase is a ribonucleoprotein (RNP) that synthesizes telomeric DNA repeats. The telomerase RNA subunit provides the template for synthesis of these repeats. The catalytic subunit of RNP is known as telomerase reverse transcriptase (TERT). The reverse transcriptase (RT) domain is located in the C-terminal region of the TERT polypeptide. Single amino acid substitutions in this region lead to telomere shortening and senescence. Telomerase is an enzyme that, in certain cells, maintains the physical ends of chromosomes (telomeres) during replication. In somatic cells, replication of the lagging strand requires the continual presence of an RNA primer approximately 200 nucleotides upstream, which is complementary to the template strand. Since there is a region of DNA less than 200 base pairs from the end of the chromosome where this is not possible, the chromosome is continually shortened. However, a surplus of repetitive DNA at

>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family

Probab=97.39  E-value=0.0001  Score=52.60  Aligned_cols=46  Identities=15%  Similarity=0.105  Sum_probs=38.4

Q ss_pred             HHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCcccceee
Q psy13898         80 LAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSAEKSEVV  133 (185)
Q Consensus        80 ~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~~KTKvM  133 (185)
                      .....+++||+.+...   +.     +++..+..+.+++++.||++|.+||+..
T Consensus        40 ~~~~~~Y~DD~~i~~~---~~-----~~~~~~~~l~~~l~~~gl~ln~~Kt~~~   85 (98)
T cd00304          40 DITLIRYVDDLVVIAK---SE-----QQAVKKRELEEFLARLGLNLSDEKTQFT   85 (98)
T ss_pred             CceEEEeeCcEEEEeC---cH-----HHHHHHHHHHHHHHHcCcEEChheeEEe
Confidence            4668899999988532   11     6889999999999999999999999975

An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.

>cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons

Probab=96.18  E-value=0.0062  Score=45.51  Aligned_cols=71  Identities=15%  Similarity=0.143  Sum_probs=44.6

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHH-HHhhhCCccC
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVT-VANEYGLKFS  126 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~-~s~~~GL~IN  126 (185)
                      +..+-.|+.+|...++-+...  +.     ........++||+-+..   .+++    ..+..+..+.+ .++++||.+|
T Consensus        35 p~Gl~~sp~~f~~~~~~i~~~--~~-----~~~~~v~~Y~DDili~~---~~~~----~~~~~~~~l~~~~l~~~gl~ln  100 (119)
T cd03714          35 PFGLSLAPRVFTKVVEALLAP--LR-----LLGVRIFSYLDDLLIIA---SSIK----TSEAVLRHLRATLLANLGFTLN  100 (119)
T ss_pred             CCcccchHHHHHHHHHHHHHH--hh-----cCCeEEEEEecCeEEEe---CcHH----HHHHHHHHHHHHHHHHcCCccC
Confidence            445556666665444433211  11     11234678999988843   2333    56667777766 5999999999


Q ss_pred             ccccee
Q psy13898        127 AEKSEV  132 (185)
Q Consensus       127 ~~KTKv  132 (185)
                      ++||++
T Consensus       101 ~~K~~~  106 (119)
T cd03714         101 LEKSKL  106 (119)
T ss_pred             hhhcEe
Confidence            999996

Members of the subfamily include the Dictyostelium DIRS-1, Volvox carteri kangaroo, and Panagrellus redivivus PAT elements. These elements differ from LTR and conventional non-LTR retrotransposons. They contain split direct repeat (SDR) termini, and have been proposed to integrate via double-stranded closed-circle DNA intermediates assisted by an encoded recombinase which is similar to gamma-site-specific integrase.

>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs)

Probab=96.00  E-value=0.0044  Score=51.15  Aligned_cols=72  Identities=13%  Similarity=0.098  Sum_probs=50.6

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      ++.+-.|+.+|.-+++......+ .+    .....+..+.||+-|.   +++.+    +..+.++.+.+.++++||.+|.
T Consensus       130 P~Gl~~SP~~f~~~m~~~l~~~~-~~----~~~~~~~~Y~DDili~---s~~~~----~~~~~l~~v~~~l~~~gl~ln~  197 (213)
T cd01645         130 PQGMKNSPTICQSFVAQALEPFR-KQ----YPDIVIYHYMDDILIA---SDLEG----QLREIYEELRQTLLRWGLTIPP  197 (213)
T ss_pred             CCCCcChHHHHHHHHHHHHHHHH-HH----CCCeEEEEEcCCEEEE---cCCHH----HHHHHHHHHHHHHHHCCCEeCH
Confidence            56677788888776665543221 10    0112356899998773   33333    8899999999999999999999


Q ss_pred             ccce
Q psy13898        128 EKSE  131 (185)
Q Consensus       128 ~KTK  131 (185)
                      +||+
T Consensus       198 ~K~~  201 (213)
T cd01645         198 EKVQ  201 (213)
T ss_pred             HHEe
Confidence            9987

RTs catalyze the conversion of single-stranded RNA into double-stranded viral DNA for integration into host chromosomes. Proteins in this subfamily contain long terminal repeats (LTRs) and are multifunctional enzymes with RNA-directed DNA polymerase, DNA directed DNA polymerase, and ribonuclease hybrid (RNase H) activities. The viral RNA genome enters the cytoplasm as part of a nucleoprotein complex, and the process of reverse transcription generates in the cytoplasm forming a linear DNA duplex via an intricate series of steps. This duplex DNA is colinear with its RNA template, but contains terminal duplications known as LTRs that are not present in viral RNA. It has been proposed that two specialized template switches, known as strand-transfer reactions or "jumps", are required to generate the LTRs.

>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs)

Probab=95.36  E-value=0.0036  Score=56.11  Aligned_cols=78  Identities=17%  Similarity=0.130  Sum_probs=57.5

Q ss_pred             EEeccC-CCCCcccchhhHHHHHHHH--HHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHH
Q psy13898         41 VTIQKT-NAGPLTQAKFIFDDHIRCM--AAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTV  117 (185)
Q Consensus        41 i~i~~~-~~~~~~~a~f~F~d~i~c~--~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~  117 (185)
                      ..+++| .-+|+|...|+     .|+  +.+|.       .+...+.++|||+.+-.    +++    +.....+.+.+.
T Consensus        82 rGtPqGgviSplLaNiyL-----~~lD~~v~~~-------~~g~~l~RYaDD~vi~~----~~~----~a~~aw~~i~~f  141 (346)
T cd01709          82 RGTPMSHALSDVFGELVL-----FCLDFAVNQA-------TDGGLLYRLHDDLWFWG----QPE----TCAKAWKAIQEF  141 (346)
T ss_pred             CccCCCchhhHHHHHHHH-----HHHHHHHHhc-------CCCceEEEEcCeEEEEc----CHH----HHHHHHHHHHHH
Confidence            456665 47888888888     466  23332       22467899999998842    123    677788899999


Q ss_pred             HhhhCCccCcccceeeecccc
Q psy13898        118 ANEYGLKFSAEKSEVVVLKCE  138 (185)
Q Consensus       118 s~~~GL~IN~~KTKvM~~~~~  138 (185)
                      ++..||++|++||++..+...
T Consensus       142 l~~lGLelN~eKT~iV~~~~~  162 (346)
T cd01709         142 AKVMGLELNKEKTGSVYLSDD  162 (346)
T ss_pred             HHHcCceeccccceEEEeccC
Confidence            999999999999999976543

An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs.

>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT

Probab=94.74  E-value=0.029  Score=45.91  Aligned_cols=74  Identities=16%  Similarity=0.113  Sum_probs=49.3

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-.|+.+|..+++.+...-...     .-...+..|.||+-|.   +.    +..+..+.++.+...++++|+.+|.
T Consensus       126 p~Gl~~sp~~f~~~~~~~l~~~~~~-----~~~~~~~~Y~DDili~---s~----~~~e~~~~l~~v~~~l~~~gl~l~~  193 (210)
T cd03715         126 PQGFKNSPTLFHEALARDLAPFPLE-----HEGTILLQYVDDLLLA---AD----SEEDCLKGTDALLTHLGELGYKVSP  193 (210)
T ss_pred             eccccCcHHHHHHHHHHHHHHHHhh-----CCCeEEEEECCcEEEe---cC----CHHHHHHHHHHHHHHHHHCCCCcCH
Confidence            5566667777766666543221100     0012345688888873   32    3347889999999999999999999


Q ss_pred             ccceee
Q psy13898        128 EKSEVV  133 (185)
Q Consensus       128 ~KTKvM  133 (185)
                      +||+..
T Consensus       194 ~K~~~~  199 (210)
T cd03715         194 KKAQIC  199 (210)
T ss_pred             HHeeCC
Confidence            999964

An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.

>cd01647 RT_LTR RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template

Probab=90.60  E-value=0.18  Score=38.16  Aligned_cols=70  Identities=17%  Similarity=0.042  Sum_probs=45.8

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +..+-.++.+|.-.++......         ....+..|.||+-+..   .    +..+....++.+....+++|+.+|.
T Consensus        97 p~G~~~s~~~~~~~~~~~l~~~---------~~~~~~~y~DDi~i~~---~----~~~~~~~~~~~~~~~l~~~~~~~~~  160 (177)
T cd01647          97 PFGLKNAPATFQRLMNKILGDL---------LGDFVEVYLDDILVYS---K----TEEEHLEHLREVLERLREAGLKLNP  160 (177)
T ss_pred             cCCCccHHHHHHHHHHhhhccc---------cccccEEEecCccccC---C----CHHHHHHHHHHHHHHHHHcCCEeCH
Confidence            3445556666655554442111         1234567888877732   2    2346778888888899999999999


Q ss_pred             ccceee
Q psy13898        128 EKSEVV  133 (185)
Q Consensus       128 ~KTKvM  133 (185)
                      +||+..
T Consensus       161 ~K~~~~  166 (177)
T cd01647         161 EKCEFG  166 (177)
T ss_pred             HHceec
Confidence            999854

RT catalyzes DNA replication from an RNA template, and is responsible for the replication of retroelements. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs are present in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and Caulimoviruses.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	185
3fsi_A	255	RT, reverse transcriptase domain; transferase/DNA	96.74
1rw3_A	455	POL polyprotein; RNA and DNA dependent DNA polymer	95.64
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	93.29
2zd1_B	428	P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid	92.28
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	91.94

>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...

Probab=96.74  E-value=0.00061  Score=56.17  Aligned_cols=89  Identities=17%  Similarity=0.191  Sum_probs=61.8

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-.|..+|...++.+.... ..+    ........|.||+-|.   +.+    ..+....++.+-+.++++||.+|.
T Consensus       166 PfGl~~sP~~fq~~m~~il~~~-~~~----~~~~~v~~Y~DDili~---s~~----~eeh~~~l~~v~~~L~~~gl~l~~  233 (255)
T 3fsi_A          166 PQGFKNSPTLFDEALHRDLADF-RIQ----HPDLILLQYVDDLLLA---ATS----ELDCQQGTRALLQTLGNLGYRASA  233 (255)
T ss_dssp             CTTCTTHHHHHHHHHHHHTHHH-HHH----CTTCEEEEETTEEEEE---ESS----HHHHHHHHHHHHHHHHHHTCCBCT
T ss_pred             CCCCCCcHHHHHHHHHHHHHHH-HHh----CcCcEEEEEcCCeEEE---eCC----HHHHHHHHHHHHHHHHHCCeEECH
Confidence            6677888888876665543111 100    0011345688988873   323    337788899999999999999999


Q ss_pred             ccceeeeccccccccceEEECCeeccccceeEeecceecCCC
Q psy13898        128 EKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDG  169 (185)
Q Consensus       128 ~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~d~  169 (185)
                      +||++..                     .+++|||-+|+.+|
T Consensus       234 ~Kc~f~~---------------------~~~~fLG~~i~~~g  254 (255)
T 3fsi_A          234 KKAQICQ---------------------KQVKYLGYLLKEGQ  254 (255)
T ss_dssp             TTCEEEE---------------------SEEEETTEEEETTB
T ss_pred             HHhcccC---------------------CceEEEEEEEeCCc
Confidence            9998753                     35899999998765

>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2

Probab=95.64  E-value=0.0055  Score=54.44  Aligned_cols=89  Identities=18%  Similarity=0.243  Sum_probs=59.5

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-+|+.+|...++.+.....-.     .-...+..|.||+-|.   +.+.    .+....++.+-+.+++.||.+|+
T Consensus       170 pfGl~naP~~fq~~m~~~l~~~~~~-----~~~~~v~~YvDDili~---s~~~----~e~~~~l~~v~~~l~~~gl~l~~  237 (455)
T 1rw3_A          170 PQGFKNSPTLFDEALHRDLADFRIQ-----HPDLILLQYVDDLLLA---ATSE----LDCQQGTRALLQTLGNLGYRASA  237 (455)
T ss_dssp             CSSCTTHHHHHHHHHHHHHHHHHHT-----CTTCEEEEETTEEEEE---ESSH----HHHHHHHHHHHHHHHHHTCCBCG
T ss_pred             CCCCCCcHHHHHHHHHHHHHHhhhh-----CCCceEEEEcCCEEEe---cCCH----HHHHHHHHHHHHHHHHcCCccCc
Confidence            6677888888877666553222100     0012234588988773   3333    37788889999999999999999


Q ss_pred             ccceeeeccccccccceEEECCeeccccceeEeecceecCCC
Q psy13898        128 EKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISEDG  169 (185)
Q Consensus       128 ~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~d~  169 (185)
                      +||++..                     .+++|||-+|+.+|
T Consensus       238 ~K~~f~~---------------------~~~~fLG~~i~~~g  258 (455)
T 1rw3_A          238 KKAQICQ---------------------KQVKYLGYLLKEGQ  258 (455)
T ss_dssp             GGCCCSB---------------------SSCEETTEEESSSE
T ss_pred             cchhhhc---------------------cceeEeeeeccCCe
Confidence            9998642                     34677777776543

>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...

Probab=93.29  E-value=0.032  Score=50.90  Aligned_cols=74  Identities=14%  Similarity=0.060  Sum_probs=48.4

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-.|+.+|...++-+.... +.+.    -...+..|-||+-|.   +.   ++..+....++.+-+.++++||.+|+
T Consensus       152 PfGl~nap~~fq~~m~~il~~~-~~~~----~~~~v~~Y~DDIli~---s~---~~~~eh~~~l~~v~~~l~~~gl~l~~  220 (557)
T 2zd1_A          152 PQGWKGSPAIFQSSMTKILEPF-AAQN----PDIVIYQYMDDLYVG---SD---LEIGQHRTKIEELRQHLLRWGLTTPD  220 (557)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHHH-HHTC----TTEEEEEETTEEEEE---EC---SCHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh-hhcC----CCceEEEEecCEEEe---cC---chHHHHHHHHHHHHHHHHHcCCccCh
Confidence            6677788888876666554222 1110    011234588888773   22   12336677888899999999999999


Q ss_pred             cccee
Q psy13898        128 EKSEV  132 (185)
Q Consensus       128 ~KTKv  132 (185)
                      +||+.
T Consensus       221 ~Kc~f  225 (557)
T 2zd1_A          221 KKHQK  225 (557)
T ss_dssp             SCCSC
T ss_pred             hhcCC
Confidence            99875

>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ...

Probab=92.28  E-value=0.03  Score=49.67  Aligned_cols=74  Identities=14%  Similarity=0.064  Sum_probs=40.5

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-.|+.+|-..+.-+.... +.+.    -......|.||+-|.   +.+   +..+....++.+-+.+++.||.+|+
T Consensus       150 PfGl~nsPa~fq~~m~~il~~~-~~~~----~~~~v~vY~DDIlI~---s~~---~~~eh~~~l~~v~~~l~~~gL~l~~  218 (428)
T 2zd1_B          150 PQGWKGSPAIFQSSMTKILEPF-KKQN----PDIVIYQYMDDLYVG---SDL---EIGQHRTKIEELRQHLLRWGLTTPD  218 (428)
T ss_dssp             CTTCTHHHHHHHHHHHHHHHHH-HHHC----TTCEEEEETTEEEEE---ECS---CHHHHHHHHHHHHHHHHHHHC----
T ss_pred             CCCCcchHHHHHHHHHHHHHHH-hhcC----CCceEEEEecceEEe---cCC---cHHHHHHHHHHHHHHHHHhCCccCh
Confidence            6777888888877666554222 1110    000134588988773   221   1236778888888999999999999


Q ss_pred             cccee
Q psy13898        128 EKSEV  132 (185)
Q Consensus       128 ~KTKv  132 (185)
                      +||+.
T Consensus       219 ~Kc~~  223 (428)
T 2zd1_B          219 KKHQK  223 (428)
T ss_dssp             -----
T ss_pred             hHccc
Confidence            99874

>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B

Probab=91.94  E-value=0.068  Score=48.72  Aligned_cols=73  Identities=11%  Similarity=0.043  Sum_probs=47.2

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-.|+.+|-..+.-+.... +.+.    ....+..|-||+-|.   |.   ++..+....++.+-+.++++||.+|+
T Consensus       150 PfGl~napa~fq~~m~~il~~~-~~~~----~~~~v~~Y~DDIli~---s~---~~~~eh~~~l~~v~~~l~~~gl~l~~  218 (555)
T 1mu2_A          150 PQGWKGSPAIFQHTMRQVLEPF-RKAN----KDVIIIQYMDDILIA---SD---RTDLEHDRVVLQLKELLNGLGFSTPD  218 (555)
T ss_dssp             CTTCTTHHHHHHHHHHHHHHHH-HHHC----TTSEEEEETTEEEEE---EC---SCHHHHHHHHHHHHHHHHHTTCBCCS
T ss_pred             CCCCCCcHHHHHHHHHHHHHHH-HhhC----CCcEEEEEecceEEe---cC---CCHHHHHHHHHHHHHHHHHcCCccCH
Confidence            6677888888876666554222 1110    011244578888773   22   12336777788888899999999999


Q ss_pred             ccce
Q psy13898        128 EKSE  131 (185)
Q Consensus       128 ~KTK  131 (185)
                      +||.
T Consensus       219 ~K~~  222 (555)
T 1mu2_A          219 EKFQ  222 (555)
T ss_dssp             TTEE
T ss_pred             HHhc
Confidence            9984

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	185
d1ztwa1	255	MMLV reverse transcriptase {Moloney murine leukemi	95.77

>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]}

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Reverse transcriptase
domain: MMLV reverse transcriptase
species: Moloney murine leukemia virus, MoMLV [TaxId: 11801]

Probab=95.77  E-value=0.0016  Score=52.12  Aligned_cols=87  Identities=18%  Similarity=0.258  Sum_probs=60.0

Q ss_pred             CCCcccchhhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhhcCCCCCCCCCCCCCchhhhhHHHHHHHHHhhhCCccCc
Q psy13898         48 AGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEWVTVANEYGLKFSA  127 (185)
Q Consensus        48 ~~~~~~a~f~F~d~i~c~~akq~l~~gr~~~r~~k~~~~a~~l~i~~~~s~~~~s~~~~Lq~~l~~L~~~s~~~GL~IN~  127 (185)
                      +.++-+|..+|...+.++.+--+...     -...+..|-||+-+.   +.+.    .+..+.++.+-+.+++.|+.+|.
T Consensus       166 PfGl~~spa~fq~~~~~il~~~~~~~-----~~~~~~~Y~DDili~---s~t~----~eh~~~l~~vl~~l~~~gl~~~~  233 (255)
T d1ztwa1         166 PQGFKNSPTLFDEALHRDLADFRIQH-----PDLILLQYVDDLLLA---ATSE----LDCQQGTRALLQTLGNLGYRASA  233 (255)
T ss_dssp             CTTCTTHHHHHHHHHHHHTHHHHHHC-----TTCEEEEETTEEEEE---ESSH----HHHHHHHHHHHHHHHHHTCCBCT
T ss_pred             ehhcccchhhhHHHHHHHHHHhhccC-----CceEEEEEeeeeecc---CCCH----HHHHHHHHHHHHHHHHCcCEeCH
Confidence            66778888888777766643211100     011133577887773   3333    37888888899999999999999


Q ss_pred             ccceeeeccccccccceEEECCeeccccceeEeecceecC
Q psy13898        128 EKSEVVVLKCEEQVEGAIVMNGTTLKQVDHFKYLGSIISE  167 (185)
Q Consensus       128 ~KTKvM~~~~~~~~~~~i~I~g~~le~Ve~FkYLGs~Is~  167 (185)
                      +||++-.                     ++..|||-+|++
T Consensus       234 ~K~~~~~---------------------~~v~fLG~~I~~  252 (255)
T d1ztwa1         234 KKAQICQ---------------------KQVKYLGYLLKE  252 (255)
T ss_dssp             TTCEEEE---------------------SEEEETTEEEET
T ss_pred             HHeECCC---------------------CCcEEeEEEEeC
Confidence            9999742                     457899999874