Psyllid ID: psy12139

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60-----
Protein Sequence
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSSTVKGELTLR
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHcHHHHHHHHHHHHHHHHHHHccccccccccccccccEEcccccccccccc
Secondary Structure Prediction (SSPRO)
HHccccHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccHHHHHHccccccEEEcccccccEEEcc
Coil and Loop (DISEMBL)
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSghdlssenllgssdgidihsstvkgeltlr
Flexible Loop (DISEMBL)
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSenllgssdgidihsstvkgeltlr
Low Complexity Region (SEG)
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSSTVKGELTLR
Disordered region (IsUnstruct)
**********LMLL***************************************************
Disordered Region (DISOPRED)
*****SPAQLLMLLASDEALRQKVEEAMDIVMN***********LGSSDGIDIHSSTV*******
Disordered Region (DISEMBL)
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSSTVKGELTLR
Disordered Region (DISPRO)
*LLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSSTVKGELT**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSSTVKGELTLR
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

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	65
307203970	2836	E3 ubiquitin-protein ligase UBR5 [Harpeg	0.676	0.015	0.688	2e-06
405968487	1240	E3 ubiquitin-protein ligase UBR5 [Crasso	0.676	0.035	0.644	3e-06
345498130	2928	PREDICTED: E3 ubiquitin-protein ligase h	0.676	0.015	0.644	5e-06
345498132	2922	PREDICTED: E3 ubiquitin-protein ligase h	0.676	0.015	0.644	5e-06
307188163	2716	E3 ubiquitin-protein ligase hyd [Campono	0.630	0.015	0.690	7e-06
340721355	2826	PREDICTED: e3 ubiquitin-protein ligase h	0.538	0.012	0.742	3e-05
350406689	2826	PREDICTED: E3 ubiquitin-protein ligase h	0.538	0.012	0.742	3e-05
260787218	2721	hypothetical protein BRAFLDRAFT_101562 [	0.846	0.020	0.543	4e-05
357616934	2852	hypothetical protein KGM_10406 [Danaus p	0.492	0.011	0.75	5e-05
380015813	2824	PREDICTED: E3 ubiquitin-protein ligase h	0.538	0.012	0.714	0.0001

>gi|307203970|gb|EFN82877.1| E3 ubiquitin-protein ligase UBR5 [Harpegnathos saltator]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 31/45 (68%), Positives = 38/45 (84%), Gaps = 1/45 (2%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
            MLLELSPAQLLMLLAS++ALRQKVEEA +++ +    DL+SE LL
Sbjct: 2467 MLLELSPAQLLMLLASEDALRQKVEEAFELIHS-HNQDLTSEALL 2510

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|405968487|gb|EKC33554.1| E3 ubiquitin-protein ligase UBR5 [Crassostrea gigas]

 Score = 55.8 bits (133), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/45 (64%), Positives = 39/45 (86%), Gaps = 1/45 (2%)

Query: 1   MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
           MLLELSPAQLL++L S+E LRQ+V+EA+DI+M+  G +LS+E LL
Sbjct: 867 MLLELSPAQLLLMLTSEETLRQRVDEAVDIIMS-HGRELSAEALL 910

Source: Crassostrea gigas

Species: Crassostrea gigas

Genus: Crassostrea

Family: Ostreidae

Order: Ostreoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|345498130|ref|XP_003428158.1| PREDICTED: E3 ubiquitin-protein ligase hyd-like isoform 2 [Nasonia vitripennis]

 Score = 55.1 bits (131), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 29/45 (64%), Positives = 38/45 (84%), Gaps = 1/45 (2%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
            MLLE++PAQLLMLLAS+E+LRQKVEEA +++ +    DL+SE LL
Sbjct: 2558 MLLEMNPAQLLMLLASEESLRQKVEEAFELIQS-HNQDLASEALL 2601

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345498132|ref|XP_001605335.2| PREDICTED: E3 ubiquitin-protein ligase hyd-like isoform 1 [Nasonia vitripennis]

 Score = 55.1 bits (131), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 29/45 (64%), Positives = 38/45 (84%), Gaps = 1/45 (2%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
            MLLE++PAQLLMLLAS+E+LRQKVEEA +++ +    DL+SE LL
Sbjct: 2552 MLLEMNPAQLLMLLASEESLRQKVEEAFELIQS-HNQDLASEALL 2595

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307188163|gb|EFN72995.1| E3 ubiquitin-protein ligase hyd [Camponotus floridanus]

 Score = 54.7 bits (130), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 29/42 (69%), Positives = 37/42 (88%), Gaps = 1/42 (2%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSE 42
            MLLELSPAQLLMLLAS++ALRQKVEEA +++ + +  DL+SE
Sbjct: 2347 MLLELSPAQLLMLLASEDALRQKVEEAFELIHSHT-QDLTSE 2387

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340721355|ref|XP_003399087.1| PREDICTED: e3 ubiquitin-protein ligase hyd-like [Bombus terrestris]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/35 (74%), Positives = 32/35 (91%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLS 35
            MLLELSPAQLLMLLAS++ALRQKVEEA +++ + S
Sbjct: 2457 MLLELSPAQLLMLLASEDALRQKVEEAFELIRSHS 2491

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350406689|ref|XP_003487850.1| PREDICTED: E3 ubiquitin-protein ligase hyd-like [Bombus impatiens]

 Score = 52.8 bits (125), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/35 (74%), Positives = 32/35 (91%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLS 35
            MLLELSPAQLLMLLAS++ALRQKVEEA +++ + S
Sbjct: 2457 MLLELSPAQLLMLLASEDALRQKVEEAFELIRSHS 2491

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|260787218|ref|XP_002588651.1| hypothetical protein BRAFLDRAFT_101562 [Branchiostoma floridae] gi|229273818|gb|EEN44662.1| hypothetical protein BRAFLDRAFT_101562 [Branchiostoma floridae]

 Score = 52.4 bits (124), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/57 (54%), Positives = 42/57 (73%), Gaps = 2/57 (3%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLLGSSDGIDIHSST 57
            MLLE+SPAQLL+LLAS+++LRQ+VEEA+DI+  LS    S+ + LG+ D     S T
Sbjct: 2347 MLLEMSPAQLLLLLASEDSLRQRVEEAVDII--LSHGRESTADPLGAIDLFSYSSDT 2401

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|357616934|gb|EHJ70493.1| hypothetical protein KGM_10406 [Danaus plexippus]

 Score = 52.0 bits (123), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/32 (75%), Positives = 31/32 (96%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVM 32
            MLLEL+PAQLL+LLAS++ALRQKV EAMD+++
Sbjct: 2485 MLLELTPAQLLVLLASEDALRQKVREAMDLIV 2516

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380015813|ref|XP_003691889.1| PREDICTED: E3 ubiquitin-protein ligase hyd-like [Apis florea]

 Score = 50.8 bits (120), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/35 (71%), Positives = 31/35 (88%)

Query: 1    MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLS 35
            MLLEL PAQLLMLLAS++AL+QKVEEA +I+ + S
Sbjct: 2455 MLLELPPAQLLMLLASEDALQQKVEEAFEIIRSHS 2489

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

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	65
UNIPROTKB|E7ET84	527	UBR5 "E3 ubiquitin-protein lig	0.676	0.083	0.511	5.3e-06
UNIPROTKB|I3LGM1	1000	LOC100738301 "Uncharacterized	0.676	0.044	0.511	1.2e-05
RGD|621236	2788	Ubr5 "ubiquitin protein ligase	0.676	0.015	0.533	1.8e-05
UNIPROTKB|Q62671	2788	Ubr5 "E3 ubiquitin-protein lig	0.676	0.015	0.533	1.8e-05
UNIPROTKB|K7GPI8	1585	LOC100738301 "Uncharacterized	0.676	0.027	0.511	2.1e-05
ZFIN|ZDB-GENE-030131-6559	2822	ubr5 "ubiquitin protein ligase	0.676	0.015	0.533	2.4e-05
UNIPROTKB|F1P0U1	2775	Gga.55416 "Uncharacterized pro	0.784	0.018	0.509	3e-05
UNIPROTKB|J9P5M9	2307	UBR5 "Uncharacterized protein"	0.676	0.019	0.511	3.1e-05
UNIPROTKB|E7EMW7	2792	UBR5 "E3 ubiquitin-protein lig	0.676	0.015	0.511	3.8e-05
MGI|MGI:1918040	2792	Ubr5 "ubiquitin protein ligase	0.676	0.015	0.511	3.8e-05

UNIPROTKB|E7ET84 UBR5 "E3 ubiquitin-protein ligase UBR5" [Homo sapiens (taxid:9606)]

 Score = 115 (45.5 bits), Expect = 5.3e-06, P = 5.3e-06
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:   148 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 191

GO:0003723 "RNA binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

UNIPROTKB|I3LGM1 LOC100738301 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 115 (45.5 bits), Expect = 1.2e-05, P = 1.2e-05
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:   621 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 664

GO:0005622 "intracellular" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

RGD|621236 Ubr5 "ubiquitin protein ligase E3 component n-recognin 5" [Rattus norvegicus (taxid:10116)]

 Score = 118 (46.6 bits), Expect = 1.8e-05, P = 1.8e-05
 Identities = 24/45 (53%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +VEEAM++++   G +  ++++L
Sbjct:  2409 MLLELSPAQLLLLLASEDSLRARVEEAMELIV-AHGRENGADSIL 2452

GO:0000209 "protein polyubiquitination" evidence=ISO

GO:0003723 "RNA binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA;IBA;TAS

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IBA

GO:0005737 "cytoplasm" evidence=IBA

GO:0006281 "DNA repair" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=ISO;ISS

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016567 "protein ubiquitination" evidence=TAS

GO:0033160 "positive regulation of protein import into nucleus, translocation" evidence=ISO

GO:0034450 "ubiquitin-ubiquitin ligase activity" evidence=ISO

GO:0035413 "positive regulation of catenin import into nucleus" evidence=ISO

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IBA

GO:0043130 "ubiquitin binding" evidence=IEA

GO:0050847 "progesterone receptor signaling pathway" evidence=ISO;IBA

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=ISO

GO:1901315 "negative regulation of histone H2A K63-linked ubiquitination" evidence=ISO;ISS

GO:2000780 "negative regulation of double-strand break repair" evidence=ISO;ISS

UNIPROTKB|Q62671 Ubr5 "E3 ubiquitin-protein ligase UBR5" [Rattus norvegicus (taxid:10116)]

 Score = 118 (46.6 bits), Expect = 1.8e-05, P = 1.8e-05
 Identities = 24/45 (53%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +VEEAM++++   G +  ++++L
Sbjct:  2409 MLLELSPAQLLLLLASEDSLRARVEEAMELIV-AHGRENGADSIL 2452

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0043130 "ubiquitin binding" evidence=IEA

UNIPROTKB|K7GPI8 LOC100738301 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 115 (45.5 bits), Expect = 2.1e-05, P = 2.1e-05
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:  1206 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 1249

GO:0005622 "intracellular" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

ZFIN|ZDB-GENE-030131-6559 ubr5 "ubiquitin protein ligase E3 component n-recognin 5" [Danio rerio (taxid:7955)]

 Score = 117 (46.2 bits), Expect = 2.4e-05, P = 2.4e-05
 Identities = 24/45 (53%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +VEEAM++++   G +  ++++L
Sbjct:  2442 MLLELSPAQLLLLLASEDSLRARVEEAMELLIT-HGRENGADSIL 2485

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA;IBA

GO:0006464 "cellular protein modification process" evidence=IEA

GO:0043130 "ubiquitin binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0050847 "progesterone receptor signaling pathway" evidence=IBA

GO:0005634 "nucleus" evidence=IBA

GO:0005737 "cytoplasm" evidence=IBA

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IBA

UNIPROTKB|F1P0U1 Gga.55416 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 116 (45.9 bits), Expect = 3.0e-05, P = 3.0e-05
 Identities = 28/55 (50%), Positives = 41/55 (74%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVM---NLSGHD-LSSENLLGSSDGI 51
             MLLELSPAQLL+LLAS+++LR +V+EAM++++     +G D +    LL SSD +
Sbjct:  2396 MLLELSPAQLLLLLASEDSLRARVDEAMELIIAHGRENGADSILDLGLLDSSDKV 2450

GO:0003723 "RNA binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0043130 "ubiquitin binding" evidence=IEA

UNIPROTKB|J9P5M9 UBR5 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 115 (45.5 bits), Expect = 3.1e-05, P = 3.1e-05
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:  1928 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 1971

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E7EMW7 UBR5 "E3 ubiquitin-protein ligase UBR5" [Homo sapiens (taxid:9606)]

 Score = 115 (45.5 bits), Expect = 3.8e-05, P = 3.8e-05
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:  2413 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 2456

GO:0003723 "RNA binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0043130 "ubiquitin binding" evidence=IEA

MGI|MGI:1918040 Ubr5 "ubiquitin protein ligase E3 component n-recognin 5" [Mus musculus (taxid:10090)]

 Score = 115 (45.5 bits), Expect = 3.8e-05, P = 3.8e-05
 Identities = 23/45 (51%), Positives = 38/45 (84%)

Query:     1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSSENLL 45
             MLLELSPAQLL+LLAS+++LR +V+EAM++++   G +  ++++L
Sbjct:  2413 MLLELSPAQLLLLLASEDSLRARVDEAMELII-AHGRENGADSIL 2456

GO:0000209 "protein polyubiquitination" evidence=ISO

GO:0003723 "RNA binding" evidence=IEA

GO:0004842 "ubiquitin-protein ligase activity" evidence=IBA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IBA

GO:0005737 "cytoplasm" evidence=IBA

GO:0006281 "DNA repair" evidence=IEA

GO:0006464 "cellular protein modification process" evidence=IEA

GO:0006974 "response to DNA damage stimulus" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA

GO:0016874 "ligase activity" evidence=IEA

GO:0033160 "positive regulation of protein import into nucleus, translocation" evidence=ISO

GO:0034450 "ubiquitin-ubiquitin ligase activity" evidence=ISO

GO:0035413 "positive regulation of catenin import into nucleus" evidence=ISO

GO:0042787 "protein ubiquitination involved in ubiquitin-dependent protein catabolic process" evidence=IBA

GO:0043130 "ubiquitin binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

GO:0050847 "progesterone receptor signaling pathway" evidence=ISO;IBA

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=ISO

GO:1901315 "negative regulation of histone H2A K63-linked ubiquitination" evidence=ISO

GO:2000780 "negative regulation of double-strand break repair" evidence=ISO

---

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 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	65
pfam00658	72	pfam00658, PABP, Poly-adenylate binding protein, u	3e-08
smart00517	64	smart00517, PolyA, C-terminal domain of Poly(A)-bi	4e-08
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	4e-05

>gnl|CDD|201378 pfam00658, PABP, Poly-adenylate binding protein, unique domain

 Score = 44.5 bits (106), Expect = 3e-08
 Identities = 17/30 (56%), Positives = 24/30 (80%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+  ++LL LL SDEAL+ KV+EA+ +
Sbjct: 42 MLLEMDNSELLHLLESDEALKAKVDEALAV 71

The region featured in this family is found towards the C-terminus of poly(A)-binding proteins (PABPs). These are eukaryotic proteins that, through their binding of the 3' poly(A) tail on mRNA, have very important roles in the pathways of gene expression. They seem to provide a scaffold on which other proteins can bind and mediate processes such as export, translation and turnover of the transcripts. Moreover, they may act as antagonists to the binding of factors that allow mRNA degradation, regulating mRNA longevity. PABPs are also involved in nuclear transport. PABPs interact with poly(A) tails via RNA-recognition motifs (pfam00076). Note that the PABP C-terminal region is also found in members of the hyperplastic discs protein (HYD) family of ubiquitin ligases that contain HECT domains - these are also included in this family. Length = 72

>gnl|CDD|197769 smart00517, PolyA, C-terminal domain of Poly(A)-binding protein

 Score = 44.2 bits (105), Expect = 4e-08
 Identities = 16/30 (53%), Positives = 23/30 (76%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+  ++LL LL S E LR KV+EA+++
Sbjct: 31 MLLEMDNSELLHLLESPELLRAKVDEALEV 60

Present also in Drosophila hyperplastics discs protein. Involved in homodimerisation (either directly or indirectly). Length = 64

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 39.0 bits (91), Expect = 4e-05
 Identities = 15/30 (50%), Positives = 23/30 (76%)

Query: 1   MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
           MLLE+  ++LL LL S E L+ KV+EA+++
Sbjct: 531 MLLEMDNSELLHLLESPELLKSKVDEALEV 560

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	65
smart00517	64	PolyA C-terminal domain of Poly(A)-binding protein	99.53
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.29
PF00658	72	PABP: Poly-adenylate binding protein, unique domai	99.18

>smart00517 PolyA C-terminal domain of Poly(A)-binding protein

Probab=99.53  E-value=8.9e-15  Score=88.97  Aligned_cols=34  Identities=47%  Similarity=0.705  Sum_probs=33.0

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHh
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNL   34 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~   34 (65)
                      |||||||+|||+||+|+++|++||+||++||++|
T Consensus        31 MLLEmd~~ell~lle~~~~L~~kv~EA~~vl~~~   64 (64)
T smart00517       31 MLLEMDNSELLHLLESPELLRSKVDEALEVLKSH   64 (64)
T ss_pred             eeeCCCHHHHHHHhcCHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999875

Present also in Drosophila hyperplastics discs protein. Involved in homodimerisation (either directly or indirectly)

>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family

Probab=99.29  E-value=1.5e-12  Score=98.40  Aligned_cols=32  Identities=47%  Similarity=0.738  Sum_probs=31.2

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHH
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVM   32 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~   32 (65)
                      |||||||+||||||+|+++|++||+||++||+
T Consensus       531 m~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  562 (562)
T TIGR01628       531 MLLEMDNSELLHLLESPELLKSKVDEALEVLK  562 (562)
T ss_pred             EEecCCHHHHHHHhcCHHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999985

There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.

>PF00658 PABP: Poly-adenylate binding protein, unique domain; InterPro: IPR002004 The polyadenylate-binding protein (PABP) has a conserved C-terminal domain (PABC), which is also found in the hyperplastic discs protein (HYD) family of ubiquitin ligases that contain HECT domains (IPR000569 from INTERPRO) []

Probab=99.18  E-value=1.8e-11  Score=75.11  Aligned_cols=31  Identities=48%  Similarity=0.783  Sum_probs=30.4

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHH
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIV   31 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL   31 (65)
                      ||||||++||++||+|++.|++||+||++||
T Consensus        42 MLLe~~~~ell~ll~~~~~L~~kv~eA~~vL   72 (72)
T PF00658_consen   42 MLLEMDNSELLHLLEDPELLREKVQEAIEVL   72 (72)
T ss_dssp             HHTTSCHHHHHHHHHTHHHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            8999999999999999999999999999997

PABP recognises the 3' mRNA poly(A) tail and plays an essential role in eukaryotic translation initiation and mRNA stabilisation/degradation. PABC domains of PABP are peptide-binding domains that mediate PABP homo-oligomerisation and protein-protein interactions. In mammals, the PABC domain of PABP functions to recruit several different translation factors to the mRNA poly(A) tail [].; GO: 0003723 RNA binding; PDB: 3KUR_E 1JH4_A 2RQH_B 3KUI_A 3KUS_A 3KUJ_A 3KTR_A 2X04_A 3PTH_A 1JGN_A ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	65
3ntw_A	65	Structure Of The Mlle Domain Of Edd In Complex With		7e-04

>pdb|3NTW|A Chain A, Structure Of The Mlle Domain Of Edd In Complex With A Pam2 Peptide From Paip1 Length = 65

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 22/32 (68%), Positives = 31/32 (96%)
Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDIVM 32
          MLLELSPAQLL+LLAS+++LR +VEEAM++++
Sbjct: 32 MLLELSPAQLLLLLASEDSLRARVEEAMELIV 63

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	65
1ifw_A	92	Polyadenylate-binding protein, cytoplasmic and nuc	1e-07
1g9l_A	144	Polyadenylate-binding protein 1; all-helical domai	1e-07
1i2t_A	61	HYD protein; four alpha-helical domain, ligase; 1.	8e-07
2dyd_A	85	Poly(A)-binding protein; alpha helical protein, RN	1e-06
1nmr_A	85	Poly(A)-binding protein; all helical domain, pepti	7e-06
3kuj_A	88	Polyadenylate-binding protein 1; protein-protein c	2e-05

>1ifw_A Polyadenylate-binding protein, cytoplasmic and nuclear; all-helical domain, RNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.144.1.1 Length = 92

 Score = 43.7 bits (103), Expect = 1e-07
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          M+L+L P ++  LL SDE   Q  +EA   
Sbjct: 48 MILDLPPQEVFPLLESDELFEQHYKEASAA 77

>1g9l_A Polyadenylate-binding protein 1; all-helical domain, RNA binding protein; NMR {Homo sapiens} SCOP: a.144.1.1 PDB: 1jgn_A 1jh4_A Length = 144

 Score = 44.1 bits (103), Expect = 1e-07
 Identities = 15/30 (50%), Positives = 23/30 (76%)

Query: 1   MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
           MLLE+  ++LL +L S E+LR KV+EA+ +
Sbjct: 92  MLLEIDNSELLHMLESPESLRSKVDEAVAV 121

>1i2t_A HYD protein; four alpha-helical domain, ligase; 1.04A {Homo sapiens} SCOP: a.144.1.1 PDB: 3ntw_A Length = 61

 Score = 40.5 bits (95), Expect = 8e-07
 Identities = 21/30 (70%), Positives = 29/30 (96%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLELSPAQLL+LLAS+++LR +V+EAM++
Sbjct: 27 MLLELSPAQLLLLLASEDSLRARVDEAMEL 56

>2dyd_A Poly(A)-binding protein; alpha helical protein, RNA binding protein; NMR {Triticum aestivum} Length = 85

 Score = 40.6 bits (95), Expect = 1e-06
 Identities = 15/30 (50%), Positives = 22/30 (73%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+   ++L LL S +AL+ KV EAM++
Sbjct: 48 MLLEMDQTEVLHLLESPDALKAKVAEAMEV 77

>1nmr_A Poly(A)-binding protein; all helical domain, peptide binding protein; NMR {Trypanosoma cruzi} SCOP: a.144.1.1 Length = 85

 Score = 38.7 bits (90), Expect = 7e-06
 Identities = 12/30 (40%), Positives = 20/30 (66%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+   ++L LL +   L  KV+EA+++
Sbjct: 49 MLLEMDNGEILNLLDTPGLLDAKVQEALEV 78

>3kuj_A Polyadenylate-binding protein 1; protein-protein complex, methylation, mRNA processing, mRNA nucleus, phosphoprotein, RNA-binding, spliceosome; 1.40A {Homo sapiens} PDB: 3ktr_A 3kui_A 3ktp_A 3kus_A* 3kut_A 3pkn_A 2rqg_B 2rqh_B 3kur_A 3pth_A 2x04_A Length = 88

 Score = 37.7 bits (87), Expect = 2e-05
 Identities = 15/30 (50%), Positives = 23/30 (76%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+  ++LL +L S E+LR KV+EA+ +
Sbjct: 46 MLLEIDNSELLHMLESPESLRSKVDEAVAV 75

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	65
1i2t_A	61	HYD protein; four alpha-helical domain, ligase; 1.	99.54
1ifw_A	92	Polyadenylate-binding protein, cytoplasmic and nuc	99.54
3kuj_A	88	Polyadenylate-binding protein 1; protein-protein c	99.51
2dyd_A	85	Poly(A)-binding protein; alpha helical protein, RN	99.49
1g9l_A	144	Polyadenylate-binding protein 1; all-helical domai	99.47
1nmr_A	85	Poly(A)-binding protein; all helical domain, pepti	99.47

>1i2t_A HYD protein; four alpha-helical domain, ligase; 1.04A {Homo sapiens} SCOP: a.144.1.1 PDB: 3ntw_A

Probab=99.54  E-value=3.2e-15  Score=89.13  Aligned_cols=35  Identities=60%  Similarity=0.967  Sum_probs=33.8

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhh
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLS   35 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~   35 (65)
                      |||||||+|+|+||+||++|++||+||++||++|+
T Consensus        27 MLLE~d~~ell~ll~~~e~L~~kv~EA~~vl~~~~   61 (61)
T 1i2t_A           27 MLLELSPAQLLLLLASEDSLRARVDEAMELIIAHG   61 (61)
T ss_dssp             HHTTSCHHHHHHHHHCHHHHHHHHHHHHHHHHHHC
T ss_pred             hhccCCHHHHHHHHcCHHHHHHHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999874

>1ifw_A Polyadenylate-binding protein, cytoplasmic and nuclear; all-helical domain, RNA binding protein; NMR {Saccharomyces cerevisiae} SCOP: a.144.1.1

Probab=99.54  E-value=4.4e-15  Score=94.60  Aligned_cols=37  Identities=32%  Similarity=0.492  Sum_probs=35.5

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcC
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGH   37 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~   37 (65)
                      |||||||+|||+||+||++|++||+||++||++|++.
T Consensus        48 MLLEmd~~ElL~LLes~e~L~~kV~EA~~vL~~~~~~   84 (92)
T 1ifw_A           48 MILDLPPQEVFPLLESDELFEQHYKEASAAYESFKKE   84 (92)
T ss_dssp             HHTTSCHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHS
T ss_pred             hHhcCCHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999999999999999853

>3kuj_A Polyadenylate-binding protein 1; protein-protein complex, methylation, mRNA processing, mRNA nucleus, phosphoprotein, RNA-binding, spliceosome; 1.40A {Homo sapiens} PDB: 3ktr_A 3kui_A 3ktp_A 3kus_A* 3kut_A 3pkn_A 2rqg_B 2rqh_B 3kur_A 3pth_A 2x04_A

Probab=99.51  E-value=8.8e-15  Score=92.44  Aligned_cols=39  Identities=38%  Similarity=0.606  Sum_probs=36.0

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcCCC
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDL   39 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~~~   39 (65)
                      |||||||+|+++||+||++|++||+||++||+.|+.++.
T Consensus        46 MLLEmd~~Ell~lle~~e~L~~kV~EA~~vL~~~~~~~~   84 (88)
T 3kuj_A           46 MLLEIDNSELLHMLESPESLRSKVDEAVAVLQAHQAKEA   84 (88)
T ss_dssp             HHTTSCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HhhcCCHHHHHHHHcCHHHHHHHHHHHHHHHHHHHhhhc
Confidence            899999999999999999999999999999999987663

>2dyd_A Poly(A)-binding protein; alpha helical protein, RNA binding protein; NMR {Triticum aestivum}

Probab=99.49  E-value=3.3e-15  Score=94.09  Aligned_cols=37  Identities=43%  Similarity=0.672  Sum_probs=35.3

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcC
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGH   37 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~   37 (65)
                      |||||||+|||+||+||++|++||+||++||++|+++
T Consensus        48 MLLEmd~~Ell~Lles~e~L~~kv~EA~~vL~~~~~~   84 (85)
T 2dyd_A           48 MLLEMDQTEVLHLLESPDALKAKVAEAMEVLRSAQQH   84 (85)
T ss_dssp             HHHHHCHHHHHHHTTCSHHHHHHHHHHHHHHTSCSSC
T ss_pred             hhhcCCHHHHHHHHcCHHHHHHHHHHHHHHHHHHhhc
Confidence            8999999999999999999999999999999998754

>1g9l_A Polyadenylate-binding protein 1; all-helical domain, RNA binding protein; NMR {Homo sapiens} SCOP: a.144.1.1 PDB: 1jgn_A 1jh4_A

Probab=99.47  E-value=2.3e-14  Score=97.20  Aligned_cols=39  Identities=38%  Similarity=0.606  Sum_probs=36.6

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcCCC
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDL   39 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~~~   39 (65)
                      |||||||+|||+||+|+++|++||+||++||++|++++.
T Consensus        92 MLLEmd~~ElL~LLes~e~L~~kV~EA~~vL~~~~~~~~  130 (144)
T 1g9l_A           92 MLLEIDNSELLHMLESPESLRSKVDEAVAVLQAHQAKEA  130 (144)
T ss_dssp             HTTTSSSHHHHHHHHCTTHHHHHHHHHHHHHHTTSSSTT
T ss_pred             hhccCCHHHHHHHHcCHHHHHHHHHHHHHHHHHHHhccc
Confidence            899999999999999999999999999999999986543

>1nmr_A Poly(A)-binding protein; all helical domain, peptide binding protein; NMR {Trypanosoma cruzi} SCOP: a.144.1.1

Probab=99.47  E-value=7.7e-15  Score=92.38  Aligned_cols=36  Identities=33%  Similarity=0.510  Sum_probs=34.5

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhc
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSG   36 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~   36 (65)
                      |||||||+|+|+||+||++|++||+||++||++|++
T Consensus        49 MLLEmd~~ElL~Lle~~e~L~~kV~EA~~vL~~~~~   84 (85)
T 1nmr_A           49 MLLEMDNGEILNLLDTPGLLDAKVQEALEVLNRHMN   84 (85)
T ss_dssp             HCSCTHHHHHHTTCCTHHHHHHHHHHHHHHTTCCCC
T ss_pred             hHhcCCHHHHHHHHcCHHHHHHHHHHHHHHHHHhhc
Confidence            899999999999999999999999999999998863

---

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	65
d1g9la_	144	a.144.1.1 (A:) poly(A) binding protein {Human (Hom	1e-07
d1i2ta_	61	a.144.1.1 (A:) hyperplastic discs protein {Human (	1e-06
d1ifwa_	92	a.144.1.1 (A:) poly(A) binding protein {Baker's ye	1e-06
d1nmra_	85	a.144.1.1 (A:) poly(A) binding protein {Protozoan	2e-06

>d1g9la_ a.144.1.1 (A:) poly(A) binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 144

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 1e-07
 Identities = 15/30 (50%), Positives = 23/30 (76%)

Query: 1   MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
           MLLE+  ++LL +L S E+LR KV+EA+ +
Sbjct: 92  MLLEIDNSELLHMLESPESLRSKVDEAVAV 121

>d1i2ta_ a.144.1.1 (A:) hyperplastic discs protein {Human (Homo sapiens) [TaxId: 9606]} Length = 61

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: hyperplastic discs protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (91), Expect = 1e-06
 Identities = 21/32 (65%), Positives = 31/32 (96%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDIVM 32
          MLLELSPAQLL+LLAS+++LR +V+EAM++++
Sbjct: 27 MLLELSPAQLLLLLASEDSLRARVDEAMELII 58

>d1ifwa_ a.144.1.1 (A:) poly(A) binding protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 92

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 39.4 bits (92), Expect = 1e-06
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          M+L+L P ++  LL SDE   Q  +EA   
Sbjct: 48 MILDLPPQEVFPLLESDELFEQHYKEASAA 77

>d1nmra_ a.144.1.1 (A:) poly(A) binding protein {Protozoan (Trypanosoma cruzi) [TaxId: 5693]} Length = 85

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Protozoan (Trypanosoma cruzi) [TaxId: 5693]

 Score = 39.0 bits (91), Expect = 2e-06
 Identities = 12/30 (40%), Positives = 20/30 (66%)

Query: 1  MLLELSPAQLLMLLASDEALRQKVEEAMDI 30
          MLLE+   ++L LL +   L  KV+EA+++
Sbjct: 49 MLLEMDNGEILNLLDTPGLLDAKVQEALEV 78

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	65
d1i2ta_	61	hyperplastic discs protein {Human (Homo sapiens) [	99.51
d1ifwa_	92	poly(A) binding protein {Baker's yeast (Saccharomy	99.47
d1g9la_	144	poly(A) binding protein {Human (Homo sapiens) [Tax	99.47
d1nmra_	85	poly(A) binding protein {Protozoan (Trypanosoma cr	99.4

>d1i2ta_ a.144.1.1 (A:) hyperplastic discs protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: hyperplastic discs protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=4.6e-15  Score=87.16  Aligned_cols=34  Identities=62%  Similarity=0.991  Sum_probs=33.4

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHh
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNL   34 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~   34 (65)
                      |||||||+|+++||+||++|++||+||++||++|
T Consensus        27 MLLEm~~~ell~lL~~~~~L~~kV~EA~~vL~~h   60 (61)
T d1i2ta_          27 MLLELSPAQLLLLLASEDSLRARVDEAMELIIAH   60 (61)
T ss_dssp             HHTTSCHHHHHHHHHCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHCCHHHHHHHHHHHHHHHHHc
Confidence            8999999999999999999999999999999988

>d1ifwa_ a.144.1.1 (A:) poly(A) binding protein {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.47  E-value=1.8e-14  Score=90.23  Aligned_cols=41  Identities=29%  Similarity=0.432  Sum_probs=38.2

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcCCCCc
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLSS   41 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~~~~~   41 (65)
                      ||||||++||++||+|++.|++||+||++||++|++++.+.
T Consensus        48 MLLEm~~~ell~lL~~~~~L~~kV~EA~~vL~~~~~~~~~~   88 (92)
T d1ifwa_          48 MILDLPPQEVFPLLESDELFEQHYKEASAAYESFKKEQEQQ   88 (92)
T ss_dssp             HHTTSCHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHSCTTS
T ss_pred             hhcCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHhccccc
Confidence            89999999999999999999999999999999998776543

>d1g9la_ a.144.1.1 (A:) poly(A) binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=9.4e-15  Score=97.40  Aligned_cols=40  Identities=38%  Similarity=0.600  Sum_probs=37.8

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhcCCCC
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSGHDLS   40 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~~~~~   40 (65)
                      |||||||+|||+||+|++.|++||+||++||++|++++.+
T Consensus        92 MLLEmd~~ell~lL~~~~~L~~kV~EA~~vL~~~~~~~~~  131 (144)
T d1g9la_          92 MLLEIDNSELLHMLESPESLRSKVDEAVAVLQAHQAKEAA  131 (144)
T ss_dssp             HTTTSSSHHHHHHHHCTTHHHHHHHHHHHHHHTTSSSTTC
T ss_pred             hhhcCCHHHHHHHHcCHHHHHHHHHHHHHHHHHHhccHHH
Confidence            8999999999999999999999999999999999877654

>d1nmra_ a.144.1.1 (A:) poly(A) binding protein {Protozoan (Trypanosoma cruzi) [TaxId: 5693]}

class: All alpha proteins
fold: PABP domain-like
superfamily: PABC (PABP) domain
family: PABC (PABP) domain
domain: poly(A) binding protein
species: Protozoan (Trypanosoma cruzi) [TaxId: 5693]

Probab=99.40  E-value=1.8e-14  Score=89.17  Aligned_cols=36  Identities=33%  Similarity=0.510  Sum_probs=34.7

Q ss_pred             CcCCCCHHHHHHhhcCHHHHHHHHHHHHHHHHHhhc
Q psy12139          1 MLLELSPAQLLMLLASDEALRQKVEEAMDIVMNLSG   36 (65)
Q Consensus         1 MLLEmdnsElL~LLes~e~L~~KV~EA~~VL~~~~~   36 (65)
                      ||||||++||++||+|++.|++||+||++||++|++
T Consensus        49 MLLEm~~~ell~lL~~~~~L~~kV~EA~~vL~~h~s   84 (85)
T d1nmra_          49 MLLEMDNGEILNLLDTPGLLDAKVQEALEVLNRHMN   84 (85)
T ss_dssp             HCSCTHHHHHHTTCCTHHHHHHHHHHHHHHTTCCCC
T ss_pred             HhhCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHhcC
Confidence            899999999999999999999999999999999864