Citrus Sinensis ID: 030017

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180----
MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCSKS
ccccEEEEEEEcccEEEEEEEEEEEcccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEcccccHHHHHHHHHHHHHHcccHHHHHHcccEEEEEcccccccHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEcHHHHHHHHHcccccEEEEEccccccccccc
cccccEEEEEEEccEEEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccHHHHHHHHHHHHHHHcccHHHHccccEEEEEcccHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEccHHHHHHHHHcccHEEEEEEHHHHHHHHccc
MQEGLAHILLVGRsmtitrsrietsiprkhgpaiaGYESALNKFFENVLQAFLKHVDFNVVRCaviaspgftkdqFHRHLLLEAERRQLRPIIENKSRIILVHTssgykhslrevldapnvmnmiKDTKAAQEVQALKDFFNMltndptracygpkhvEVAHERMAVQTLLITDDLFRLVCSKS
MQEGLAHILLVGRSMTITRSrietsiprkhgpAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRqlrpiienksriilvhtssgykhslrEVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCSKS
MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCSKS
****LAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVC***
*QEGLAHILLVGRSMTITRSR*********************KFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVC***
MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCSKS
**EGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCS**
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRLVCSKS
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

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query184 2.2.26 [Sep-21-2011]
P48612395 Protein pelota OS=Drosoph yes no 0.967 0.450 0.516 9e-52
Q5U567383 Protein pelota homolog OS N/A no 0.967 0.464 0.522 3e-48
Q7ZWC4385 Protein pelota homolog OS yes no 0.967 0.462 0.494 1e-47
Q58DV0385 Protein pelota homolog OS yes no 0.967 0.462 0.494 1e-47
Q9BRX2385 Protein pelota homolog OS yes no 0.967 0.462 0.5 1e-47
Q5ZK01385 Protein pelota homolog OS yes no 0.967 0.462 0.488 1e-47
Q5RCE3385 Protein pelota homolog OS yes no 0.967 0.462 0.5 2e-47
Q5XIP1385 Protein pelota homolog OS yes no 0.967 0.462 0.488 2e-47
Q80X73385 Protein pelota homolog OS yes no 0.967 0.462 0.483 4e-47
P50444381 Uncharacterized protein R yes no 0.967 0.467 0.426 7e-41
>sp|P48612|PELO_DROME Protein pelota OS=Drosophila melanogaster GN=pelo PE=2 SV=2 Back     alignment and function desciption
 Score =  202 bits (514), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 92/178 (51%), Positives = 132/178 (74%)

Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNV 60
           MQEGLAH+ L+  SMT+ RS+IE SIPRK   ++  +E  L KF+E V+Q+ L+HV+F+V
Sbjct: 142 MQEGLAHVCLITASMTLVRSKIEVSIPRKRKGSVQQHEKGLAKFYEQVMQSILRHVNFDV 201

Query: 61  VRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPN 120
           V+C +IASPGF +DQF+ ++  +A +   + +++NKS+ +LVH SSG+KHSLRE+L  P 
Sbjct: 202 VKCVLIASPGFVRDQFYDYMFQQAVKMDYKLLLDNKSKFMLVHASSGFKHSLREILQDPA 261

Query: 121 VMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 178
           V+  + DTKAA EV+AL+ F+ ML  +P +A YG KHV  A E  A++TLLI+D+LFR
Sbjct: 262 VLAKMSDTKAAGEVKALEQFYMMLQCEPAKAFYGKKHVLQAAESQAIETLLISDNLFR 319
Required prior to the first meiotic division for spindle formation and nuclear envelope breakdown during spermatogenesis. It is also required for normal eye patterning and for mitotic divisions in the ovary. Required for ovarian germ line stem cell self-renewal. May play a role in regulating translation. May function in recognizing stalled ribosomes and triggering endonucleolytic cleavage of the mRNA, a mechanism to release non-functional ribosomes and degrade damaged mRNAs. May have ribonuclease activity.
Drosophila melanogaster (taxid: 7227)
EC: 3EC: .EC: 1EC: .EC: -EC: .EC: -
>sp|Q5U567|PELO_XENLA Protein pelota homolog OS=Xenopus laevis GN=pelo PE=2 SV=1 Back     alignment and function description
>sp|Q7ZWC4|PELO_DANRE Protein pelota homolog OS=Danio rerio GN=pelo PE=2 SV=1 Back     alignment and function description
>sp|Q58DV0|PELO_BOVIN Protein pelota homolog OS=Bos taurus GN=PELO PE=2 SV=2 Back     alignment and function description
>sp|Q9BRX2|PELO_HUMAN Protein pelota homolog OS=Homo sapiens GN=PELO PE=1 SV=2 Back     alignment and function description
>sp|Q5ZK01|PELO_CHICK Protein pelota homolog OS=Gallus gallus GN=PELO PE=2 SV=1 Back     alignment and function description
>sp|Q5RCE3|PELO_PONAB Protein pelota homolog OS=Pongo abelii GN=PELO PE=2 SV=1 Back     alignment and function description
>sp|Q5XIP1|PELO_RAT Protein pelota homolog OS=Rattus norvegicus GN=Pelo PE=2 SV=1 Back     alignment and function description
>sp|Q80X73|PELO_MOUSE Protein pelota homolog OS=Mus musculus GN=Pelo PE=2 SV=3 Back     alignment and function description
>sp|P50444|YNU6_CAEEL Uncharacterized protein R74.6 OS=Caenorhabditis elegans GN=R74.6 PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query184
225431029 378 PREDICTED: protein pelota [Vitis vinifer 0.967 0.470 0.938 7e-97
449442249 379 PREDICTED: protein pelota-like [Cucumis 0.967 0.469 0.921 3e-95
224082576 377 predicted protein [Populus trichocarpa] 0.967 0.472 0.915 1e-94
255543102 378 pelota, putative [Ricinus communis] gi|2 0.967 0.470 0.904 3e-94
363807988 379 uncharacterized protein LOC100793935 [Gl 0.967 0.469 0.887 2e-92
356535240 379 PREDICTED: protein pelota-like [Glycine 0.967 0.469 0.882 1e-91
388512929237 unknown [Lotus japonicus] 0.967 0.751 0.882 9e-90
297799208 378 hypothetical protein ARALYDRAFT_492022 [ 0.967 0.470 0.865 1e-87
30687676 378 Eukaryotic release factor 1 (eRF1) famil 0.967 0.470 0.859 2e-87
116310865 378 OSIGBa0132E09-OSIGBa0108L24.21 [Oryza sa 0.967 0.470 0.797 5e-82
>gi|225431029|ref|XP_002279875.1| PREDICTED: protein pelota [Vitis vinifera] gi|297735305|emb|CBI17667.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  358 bits (918), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 167/178 (93%), Positives = 175/178 (98%)

Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNV 60
           MQEGLAH++L+GRS+TITRSRIE SIPRKHGPAIAGYE+ALNKFFENVLQAFLK+VDFNV
Sbjct: 142 MQEGLAHVILIGRSLTITRSRIEASIPRKHGPAIAGYEAALNKFFENVLQAFLKYVDFNV 201

Query: 61  VRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPN 120
           VRCAVIASPGFTKDQFHRHLLLEAERRQLR IIENKSRIILVHTSSGYKHSL+EVLDAPN
Sbjct: 202 VRCAVIASPGFTKDQFHRHLLLEAERRQLRSIIENKSRIILVHTSSGYKHSLKEVLDAPN 261

Query: 121 VMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 178
           VMNMIKDTKAAQEVQALKDFFNML+NDP RACYGPKHVEVAHERMAVQTLLITDDLFR
Sbjct: 262 VMNMIKDTKAAQEVQALKDFFNMLSNDPARACYGPKHVEVAHERMAVQTLLITDDLFR 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|449442249|ref|XP_004138894.1| PREDICTED: protein pelota-like [Cucumis sativus] gi|449477765|ref|XP_004155116.1| PREDICTED: protein pelota-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|224082576|ref|XP_002306749.1| predicted protein [Populus trichocarpa] gi|222856198|gb|EEE93745.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255543102|ref|XP_002512614.1| pelota, putative [Ricinus communis] gi|223548575|gb|EEF50066.1| pelota, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|363807988|ref|NP_001242204.1| uncharacterized protein LOC100793935 [Glycine max] gi|255640054|gb|ACU20318.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|356535240|ref|XP_003536156.1| PREDICTED: protein pelota-like [Glycine max] Back     alignment and taxonomy information
>gi|388512929|gb|AFK44526.1| unknown [Lotus japonicus] Back     alignment and taxonomy information
>gi|297799208|ref|XP_002867488.1| hypothetical protein ARALYDRAFT_492022 [Arabidopsis lyrata subsp. lyrata] gi|297313324|gb|EFH43747.1| hypothetical protein ARALYDRAFT_492022 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|30687676|ref|NP_194495.3| Eukaryotic release factor 1 (eRF1) family protein [Arabidopsis thaliana] gi|3941543|gb|AAC82379.1| pelota [Arabidopsis thaliana] gi|4469016|emb|CAB38277.1| pelota (PEL1) [Arabidopsis thaliana] gi|7269619|emb|CAB81415.1| pelota (PEL1) [Arabidopsis thaliana] gi|18377690|gb|AAL66995.1| putative pelota (PEL1) protein [Arabidopsis thaliana] gi|20465995|gb|AAM20219.1| putative pelota protein (PEL1) [Arabidopsis thaliana] gi|332659974|gb|AEE85374.1| Eukaryotic release factor 1 (eRF1) family protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|116310865|emb|CAH67807.1| OSIGBa0132E09-OSIGBa0108L24.21 [Oryza sativa Indica Group] gi|125550079|gb|EAY95901.1| hypothetical protein OsI_17764 [Oryza sativa Indica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query184
TAIR|locus:2137732378 PEL1 "AT4G27650" [Arabidopsis 0.967 0.470 0.859 5.4e-79
TAIR|locus:2085465395 AT3G58390 "AT3G58390" [Arabido 0.967 0.450 0.803 4.6e-73
FB|FBgn0011207395 pelo "pelota" [Drosophila mela 0.967 0.450 0.516 1.1e-46
UNIPROTKB|H9L2N7361 PELO "Protein pelota homolog" 0.967 0.493 0.488 3.1e-44
UNIPROTKB|H9L2N8384 PELO "Protein pelota homolog" 0.967 0.463 0.488 3.1e-44
UNIPROTKB|Q5ZK01385 PELO "Protein pelota homolog" 0.967 0.462 0.488 6.4e-44
UNIPROTKB|Q58DV0385 PELO "Protein pelota homolog" 0.967 0.462 0.494 6.4e-44
UNIPROTKB|Q9BRX2385 PELO "Protein pelota homolog" 0.967 0.462 0.5 6.4e-44
RGD|1359591385 Pelo "pelota homolog (Drosophi 0.967 0.462 0.488 8.1e-44
UNIPROTKB|F2Z5N9385 PELO "Uncharacterized protein" 0.967 0.462 0.488 1.7e-43
TAIR|locus:2137732 PEL1 "AT4G27650" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 794 (284.6 bits), Expect = 5.4e-79, P = 5.4e-79
 Identities = 153/178 (85%), Positives = 168/178 (94%)

Query:     1 MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNV 60
             MQEGLA I LVGRS+T +R+RIETSIPRKHGPAIAGYESAL KFFENVLQAF+KHVDF+V
Sbjct:   142 MQEGLAQIFLVGRSVTSSRARIETSIPRKHGPAIAGYESALKKFFENVLQAFVKHVDFSV 201

Query:    61 VRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPN 120
             VRCAV+ASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHT+SGY+HSL EVL APN
Sbjct:   202 VRCAVVASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTNSGYRHSLGEVLHAPN 261

Query:   121 VMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 178
             VMNMIKDTKAA+EV+AL DF NML+ +P RACYGPKHVEVA+ERMA+QTLLITD+LFR
Sbjct:   262 VMNMIKDTKAAKEVKALNDFHNMLSTEPDRACYGPKHVEVANERMAIQTLLITDELFR 319
GO:0003747 "translation release factor activity" evidence=ISS
GO:0005634 "nucleus" evidence=ISM
GO:0006415 "translational termination" evidence=ISS
GO:0007126 "meiosis" evidence=ISS
TAIR|locus:2085465 AT3G58390 "AT3G58390" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
FB|FBgn0011207 pelo "pelota" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|H9L2N7 PELO "Protein pelota homolog" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|H9L2N8 PELO "Protein pelota homolog" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZK01 PELO "Protein pelota homolog" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q58DV0 PELO "Protein pelota homolog" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q9BRX2 PELO "Protein pelota homolog" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1359591 Pelo "pelota homolog (Drosophila)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F2Z5N9 PELO "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00025125001
SubName- Full=Chromosome chr4 scaffold_32, whole genome shotgun sequence; (378 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00001176001
SubName- Full=Chromosome chr2 scaffold_113, whole genome shotgun sequence; (605 aa)
•   • • 0.836
GSVIVG00016616001
SubName- Full=Chromosome chr11 scaffold_13, whole genome shotgun sequence; (107 aa)
    • • 0.693
GSVIVG00002292001
SubName- Full=Chromosome undetermined scaffold_129, whole genome shotgun sequence; (797 aa)
      • 0.610
GSVIVG00004407001
SubName- Full=Chromosome undetermined scaffold_690, whole genome shotgun sequence; (249 aa)
  • •   0.475
GSVIVG00015193001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (249 aa)
  • •   0.467
GSVIVG00006153001
SubName- Full=Chromosome undetermined scaffold_165, whole genome shotgun sequence; (269 aa)
  • •   0.451
GSVIVG00010464001
SubName- Full=Chromosome chr17 scaffold_263, whole genome shotgun sequence; (563 aa)
• ••    0.450
GSVIVG00024178001
RecName- Full=Proliferating cell nuclear antigen;; This protein is an auxiliary protein of DNA [...] (266 aa)
  •     0.414

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
pfam03464129 pfam03464, eRF1_2, eRF1 domain 2 4e-36
COG1537352 COG1537, PelA, Predicted RNA-binding proteins [Gen 1e-28
TIGR00111351 TIGR00111, pelota, mRNA surveillance protein pelot 9e-23
pfam03465100 pfam03465, eRF1_3, eRF1 domain 3 3e-15
TIGR03676357 TIGR03676, aRF1/eRF1, peptide chain release factor 2e-12
PRK04011411 PRK04011, PRK04011, peptide chain release factor 1 1e-08
COG1503411 COG1503, eRF1, Peptide chain release factor 1 (eRF 3e-05
>gnl|CDD|217575 pfam03464, eRF1_2, eRF1 domain 2 Back     alignment and domain information 
 Score =  121 bits (307), Expect = 4e-36
 Identities = 38/130 (29%), Positives = 65/130 (50%), Gaps = 10/130 (7%)

Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGP---AIAGYESALNKFFENVLQAFLKHVD 57
           M EG A I L+         +I   +P KHG    +   +E   ++F+  V +A  ++ D
Sbjct: 7   MDEGEALIGLLTGYGIEILGKITVGLPGKHGRGGQSARRFEEKRHEFYRKVAEAANQYFD 66

Query: 58  FNVVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLD 117
            + V+  ++A PGFTK++F+    L+    +       K +I+LV  S G +  L EVL+
Sbjct: 67  KDNVKGIILAGPGFTKNEFYDSDYLDYRLLK-------KKKIVLVDVSYGGEAGLNEVLE 119

Query: 118 APNVMNMIKD 127
            P V +++ D
Sbjct: 120 RPAVADVLSD 129

The release factor eRF1 terminates protein biosynthesis by recognising stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site. This family also includes other proteins for which the precise molecular function is unknown. Many of them are from Archaebacteria. These proteins may also be involved in translation termination but this awaits experimental verification. Length = 129
>gnl|CDD|224454 COG1537, PelA, Predicted RNA-binding proteins [General function prediction only] Back     alignment and domain information
>gnl|CDD|129217 TIGR00111, pelota, mRNA surveillance protein pelota Back     alignment and domain information
>gnl|CDD|146221 pfam03465, eRF1_3, eRF1 domain 3 Back     alignment and domain information
>gnl|CDD|234307 TIGR03676, aRF1/eRF1, peptide chain release factor 1, archaeal and eukaryotic forms Back     alignment and domain information
>gnl|CDD|235198 PRK04011, PRK04011, peptide chain release factor 1; Provisional Back     alignment and domain information
>gnl|CDD|224420 COG1503, eRF1, Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 184
KOG2869379 consensus Meiotic cell division protein Pelota/DOM 100.0
TIGR00111351 pelota probable translation factor pelota. This mo 100.0
COG1537352 PelA Predicted RNA-binding proteins [General funct 100.0
PRK04011411 peptide chain release factor 1; Provisional 100.0
TIGR00108409 eRF peptide chain release factor eRF/aRF, subunit 100.0
TIGR03676403 aRF1/eRF1 peptide chain release factor 1, archaeal 100.0
PF03464133 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This do 99.97
COG1503411 eRF1 Peptide chain release factor 1 (eRF1) [Transl 99.96
KOG0688 431 consensus Peptide chain release factor 1 (eRF1) [T 99.86
PF03465113 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This do 99.57
PF10116138 Host_attach: Protein required for attachment to ho 94.53
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=4.5e-48  Score=324.99  Aligned_cols=183  Identities=59%  Similarity=0.897  Sum_probs=178.9

Q ss_pred             CCcCeeEEEEEeCCeEEEEEEEEeeCCCCCCCCcchhHHHHHHHHHHHHHHHHhccccCCcceEEEeCCcccHHHHHHHH
Q 030017            1 MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHL   80 (184)
Q Consensus         1 id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~~~s~~~~~~~~ff~~i~~~l~~~~~~~~v~~ivIaGPGf~k~~f~~yl   80 (184)
                      +++|.|+||+++.+++...++|+.+||+||+++-|++++.+++||+.|.+++.++++|+.++|+|||||||+++.|++|+
T Consensus       142 lqEGla~IcLvt~s~tilr~kIe~siPrKr~~~~s~~e~~l~kfye~V~qA~~k~v~fd~vk~~vvASpgF~~~~~~d~~  221 (379)
T KOG2869|consen  142 LQEGLAHICLVTKSSTILRAKIEVSIPRKRKGDVSQHEEGLEKFYENVVQAILKHVNFDVVKCVVVASPGFVKDQFMDYL  221 (379)
T ss_pred             hhcCceeEEEechhHHHHHHhhhcccccccCcchhHHHHHHHHHHHHHHHHHHHhcCcceEEEEEEcCCchhHHHHHHHH
Confidence            57999999999999999999999999999877789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccchhhhhccCcEEEEecCCCcchhHHHHhcCchhHHHhhhhhHHHHHHHHHHHHHHhhcCCCcEEeCHHHHHH
Q 030017           81 LLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEV  160 (184)
Q Consensus        81 ~~~~~~~~~~~l~~~~~k~~~v~~s~~~~~gl~E~l~~~~v~~~l~~~k~~~e~~~le~f~~~l~~~~~~v~YG~~eV~~  160 (184)
                      ...+.+..++.+..++++|+++|+|+|+.++|+|+|.+|.|.+.|+|+|++.|+++|++|+.+|+++|++||||+++|.+
T Consensus       222 ~q~A~~~~~k~il~nk~kf~~~h~ssg~~hslnevL~dp~v~~~l~dtK~~~EvkalddF~~~l~~~~drA~yG~khV~~  301 (379)
T KOG2869|consen  222 FQQAVKLDLKLILENKSKFPLVHASSGYKHSLNEVLKDPAVASKLQDTKAAKEVKALDDFYVMLSKDPDRACYGPKHVEK  301 (379)
T ss_pred             HHHHHHhchhhhhhcccceeEEecCCchHHHHHHHhcChHHHHHhhchhhHHHHHHHHHHHHHhccCccccccCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccCccEEEeecCCcccCCCC
Q 030017          161 AHERMAVQTLLITDDLFRLVCSK  183 (184)
Q Consensus       161 A~e~GAVetLLisD~l~r~~d~~  183 (184)
                      |+|+|||+||||||++||+.|++
T Consensus       302 A~e~~AI~tLLitD~lfr~~DV~  324 (379)
T KOG2869|consen  302 ANEYGAIETLLITDELFRSQDVA  324 (379)
T ss_pred             HHhhcchhheehhhhhcccccHH
Confidence            99999999999999999999875

>TIGR00111 pelota probable translation factor pelota Back     alignment and domain information
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only] Back     alignment and domain information
>PRK04011 peptide chain release factor 1; Provisional Back     alignment and domain information
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1 Back     alignment and domain information
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms Back     alignment and domain information
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre Back     alignment and domain information
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre Back     alignment and domain information
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
3mca_B390 Structure Of The Dom34-Hbs1 Complex And Implication 4e-35
2vgm_A386 Structure Of Yeast Dom34 : A Protein Related To Tra 8e-25
2vgn_A386 Structure Of Yeast Dom34 : A Protein Related To Tra 3e-24
1x52_A124 Solution Structures Of The C-Terminal Domain Of The 9e-14
3j15_A357 Model Of Ribosome-Bound Archaeal Pelota And Abce1 L 5e-09
3obw_A364 Crystal Structure Of Two Archaeal Pelotas Reveal In 2e-05
>pdb|3MCA|B Chain B, Structure Of The Dom34-Hbs1 Complex And Implications For Its Role In No-Go Decay Length = 390 Back     alignment and structure 
Iteration: 1

 Score =  144 bits (362), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 67/178 (37%), Positives = 111/178 (62%)
Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNV 60
           + EGLA+I L+   MTI R RI+  IPRK     + Y+  L+KF+++V Q+     DF+ 
Sbjct: 142 LDEGLANICLITDYMTILRQRIDQVIPRKRRGDSSAYQKGLDKFYDSVFQSINSEFDFDK 201
Query: 61  VRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPN 120
           ++  ++ASPGF     + ++   A +  L+ I+++K++ +++H+S+G+ HSL E+L  P 
Sbjct: 202 LKVVILASPGFVARGLYDYIFSMAVKLDLKQIVKSKNKFVILHSSTGHIHSLNEILKDPA 261
Query: 121 VMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 178
           V + + DTK  QE++ L  F++++  D  +A YGP HV  A E  A+  LLI+D LFR
Sbjct: 262 VESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGPNHVLKAFELGAIGELLISDSLFR 319
>pdb|2VGM|A Chain A, Structure Of Yeast Dom34 : A Protein Related To Translation Termination Factor Erf1 And Involved In No-Go Decay. Length = 386 Back     alignment and structure
>pdb|2VGN|A Chain A, Structure Of Yeast Dom34 : A Protein Related To Translation Termination Factor Erf1 And Involved In No-go Decay. Length = 386 Back     alignment and structure
>pdb|1X52|A Chain A, Solution Structures Of The C-Terminal Domain Of The Human Pelota Homolog (Cgi-17) Length = 124 Back     alignment and structure
>pdb|3J15|A Chain A, Model Of Ribosome-Bound Archaeal Pelota And Abce1 Length = 357 Back     alignment and structure
>pdb|3OBW|A Chain A, Crystal Structure Of Two Archaeal Pelotas Reveal Inter-Domain Structural Plasticity Length = 364 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query184
3mca_B390 Protein DOM34, elongation factor 1 alpha-like prot 1e-53
2vgn_A386 DOM34; translation termination factor, protein bio 4e-52
3agj_B358 Protein pelota homolog; GTP binding, translation-h 6e-38
3j15_A357 Protein pelota; ribosome recycling, ribosome, arch 2e-37
3obw_A364 Protein pelota homolog; SM fold, hydrolase; 2.60A 2e-35
3oby_A352 Protein pelota homolog; SM fold, hydrolase; 2.90A 1e-34
2qi2_A347 Pelota, cell division protein pelota related prote 1e-30
3agk_A373 Peptide chain release factor subunit 1; translatio 5e-23
3e20_C 441 Eukaryotic peptide chain release factor subunit 1; 2e-21
1dt9_A 437 ERF1, protein (eukaryotic peptide chain release fa 1e-19
1x52_A124 Pelota homolog, CGI-17; ERF1_3 domain, structural 9e-19
3ir9_A166 Peptide chain release factor subunit 1; structural 1e-11
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-08
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-04
>3mca_B Protein DOM34, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe} Length = 390 Back     alignment and structure
 Score =  174 bits (441), Expect = 1e-53
 Identities = 67/178 (37%), Positives = 111/178 (62%)

Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNV 60
           + EGLA+I L+   MTI R RI+  IPRK     + Y+  L+KF+++V Q+     DF+ 
Sbjct: 142 LDEGLANICLITDYMTILRQRIDQVIPRKRRGDSSAYQKGLDKFYDSVFQSINSEFDFDK 201

Query: 61  VRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPN 120
           ++  ++ASPGF     + ++   A +  L+ I+++K++ +++H+S+G+ HSL E+L  P 
Sbjct: 202 LKVVILASPGFVARGLYDYIFSMAVKLDLKQIVKSKNKFVILHSSTGHIHSLNEILKDPA 261

Query: 121 VMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 178
           V + + DTK  QE++ L  F++++  D  +A YGP HV  A E  A+  LLI+D LFR
Sbjct: 262 VESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGPNHVLKAFELGAIGELLISDSLFR 319
>2vgn_A DOM34; translation termination factor, protein biosynthesis, translation regulation, cell division, mRNA degradation; 2.5A {Saccharomyces cerevisiae} SCOP: b.38.4.1 c.55.4.2 d.79.3.2 PDB: 2vgm_A 3izq_0 3j16_A* Length = 386 Back     alignment and structure
>3agj_B Protein pelota homolog; GTP binding, translation-hydrolase complex; HET: GTP; 2.30A {Aeropyrum pernix} Length = 358 Back     alignment and structure
>3j15_A Protein pelota; ribosome recycling, ribosome, archaea, translation-transport complex; HET: ADP; 6.60A {Pyrococcus furiosus} Length = 357 Back     alignment and structure
>3obw_A Protein pelota homolog; SM fold, hydrolase; 2.60A {Sulfolobus solfataricus} Length = 364 Back     alignment and structure
>3oby_A Protein pelota homolog; SM fold, hydrolase; 2.90A {Archaeoglobus fulgidus} Length = 352 Back     alignment and structure
>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1 c.55.4.2 d.79.3.2 Length = 347 Back     alignment and structure
>3agk_A Peptide chain release factor subunit 1; translation; 2.10A {Aeropyrum pernix} Length = 373 Back     alignment and structure
>3e20_C Eukaryotic peptide chain release factor subunit 1; SUP35, SUP45, translation termination, peptide release, GTP- nucleotide-binding; 3.50A {Schizosaccharomyces pombe} Length = 441 Back     alignment and structure
>1dt9_A ERF1, protein (eukaryotic peptide chain release factor subunit 1); tRNA mimicry, protein sythesis, STOP codon recognition, peptidyl-tRNA hydrolysis; 2.70A {Homo sapiens} SCOP: c.55.4.2 d.79.3.2 d.91.1.1 PDB: 3e1y_A* 2ktu_A 2ktv_A 2lgt_A 2hst_A Length = 437 Back     alignment and structure
>1x52_A Pelota homolog, CGI-17; ERF1_3 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.79.3.2 Length = 124 Back     alignment and structure
>3ir9_A Peptide chain release factor subunit 1; structural genomics, APC36528.1, C-terminal domain, PSI-2, protein structure initiative; 2.21A {Methanosarcina mazei} Length = 166 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query184
3mca_B390 Protein DOM34, elongation factor 1 alpha-like prot 100.0
2vgn_A386 DOM34; translation termination factor, protein bio 100.0
3j15_A357 Protein pelota; ribosome recycling, ribosome, arch 100.0
3obw_A364 Protein pelota homolog; SM fold, hydrolase; 2.60A 100.0
3oby_A352 Protein pelota homolog; SM fold, hydrolase; 2.90A 100.0
3agj_B358 Protein pelota homolog; GTP binding, translation-h 100.0
2qi2_A347 Pelota, cell division protein pelota related prote 100.0
3e20_C 441 Eukaryotic peptide chain release factor subunit 1; 100.0
3agk_A373 Peptide chain release factor subunit 1; translatio 100.0
1dt9_A 437 ERF1, protein (eukaryotic peptide chain release fa 100.0
3ir9_A166 Peptide chain release factor subunit 1; structural 99.83
1x52_A124 Pelota homolog, CGI-17; ERF1_3 domain, structural 99.75
1xbi_A120 50S ribosomal protein L7AE; alpha-beta-alpha sandw 83.59
3j21_Z99 50S ribosomal protein L30E; archaea, archaeal, KIN 81.53
>3mca_B Protein DOM34, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe} Back     alignment and structure
Probab=100.00  E-value=1.1e-47  Score=335.72  Aligned_cols=182  Identities=37%  Similarity=0.640  Sum_probs=174.6

Q ss_pred             CCcCeeEEEEEeCCeEEEEEEEEeeCCCCCCCCcchhHHHHHHHHHHHHHHHHhccccCCcceEEEeCCcccHHHHHHHH
Q 030017            1 MQEGLAHILLVGRSMTITRSRIETSIPRKHGPAIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRHL   80 (184)
Q Consensus         1 id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~~~s~~~~~~~~ff~~i~~~l~~~~~~~~v~~ivIaGPGf~k~~f~~yl   80 (184)
                      ||+|+|+||+|+++++++++++++++||||++|.++|++++++||++|++++.+++++.++++||||||||+|++|++||
T Consensus       142 ~deg~A~i~ll~~~~~~~~~~i~~~iPkK~~~gg~~~~~~~~~F~~~V~e~l~~~~d~~~v~~iIlaGPgf~K~~f~~~L  221 (390)
T 3mca_B          142 LDEGLANICLITDYMTILRQRIDQVIPRKRRGDSSAYQKGLDKFYDSVFQSINSEFDFDKLKVVILASPGFVARGLYDYI  221 (390)
T ss_dssp             EETTEEEEEEECSSCEEEEEEEECCCCCCBTTBCHHHHHHHHHHHHHHHHHHHHHCCTTTCSEEEEEESSSHHHHHHHHH
T ss_pred             EECCcEEEEEEcCCEEEEEEEEEEeCCCcCCCCchhHHHHHHHHHHHHHHHHHHHhcccCCcEEEEECChHHHHHHHHHH
Confidence            58899999999999999999999999999987655899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccchhhhhccCcEEEEecCCCcchhHHHHhcCchhHHHhhhhhHHHHHHHHHHHHHHhhcCCCcEEeCHHHHHH
Q 030017           81 LLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKAAQEVQALKDFFNMLTNDPTRACYGPKHVEV  160 (184)
Q Consensus        81 ~~~~~~~~~~~l~~~~~k~~~v~~s~~~~~gl~E~l~~~~v~~~l~~~k~~~e~~~le~f~~~l~~~~~~v~YG~~eV~~  160 (184)
                      .+++++..++.|++++++|+++++|+||++|++|+|++|+++++|+++++++|.++|++|+++|++|++++|||+++|.+
T Consensus       222 ~~~~~~~~~k~l~~~~~k~~vv~~s~gg~~gl~Evl~~~~v~~~l~~~k~~~E~~lle~f~~~l~~d~g~a~YG~~eV~~  301 (390)
T 3mca_B          222 FSMAVKLDLKQIVKSKNKFVILHSSTGHIHSLNEILKDPAVESKLADTKYVQEIRVLNKFYDVMNEDDRKAWYGPNHVLK  301 (390)
T ss_dssp             HHHHHHTTCHHHHHHGGGEEEEECSCSSGGGGGTSSSCHHHHHHHTTSHHHHHHHHHHHHHHHHHHCTTSEEESHHHHHH
T ss_pred             HHHHhhccchhhhhhcCeEEEEEcCCCcchhHHHHHhChhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEECHHHHHH
Confidence            99999888888888888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccCccEEEeecCCcccCCC
Q 030017          161 AHERMAVQTLLITDDLFRLVCS  182 (184)
Q Consensus       161 A~e~GAVetLLisD~l~r~~d~  182 (184)
                      |+++|||+||||+|++||+.|+
T Consensus       302 Ale~GAVetLLI~d~l~r~~d~  323 (390)
T 3mca_B          302 AFELGAIGELLISDSLFRSSDI  323 (390)
T ss_dssp             HHHTTCBSSCEEEETTCCCSCH
T ss_pred             HHHcCCCeEEEEecccccCCCh
Confidence            9999999999999999998764
>2vgn_A DOM34; translation termination factor, protein biosynthesis, translation regulation, cell division, mRNA degradation; 2.5A {Saccharomyces cerevisiae} SCOP: b.38.4.1 c.55.4.2 d.79.3.2 PDB: 2vgm_A 3izq_0 3j16_A* Back     alignment and structure
>3j15_A Protein pelota; ribosome recycling, ribosome, archaea, translation-transport complex; HET: ADP; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3obw_A Protein pelota homolog; SM fold, hydrolase; 2.60A {Sulfolobus solfataricus} Back     alignment and structure
>3oby_A Protein pelota homolog; SM fold, hydrolase; 2.90A {Archaeoglobus fulgidus} Back     alignment and structure
>3agj_B Protein pelota homolog; GTP binding, translation-hydrolase complex; HET: GTP; 2.30A {Aeropyrum pernix} Back     alignment and structure
>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1 c.55.4.2 d.79.3.2 Back     alignment and structure
>3e20_C Eukaryotic peptide chain release factor subunit 1; SUP35, SUP45, translation termination, peptide release, GTP- nucleotide-binding; 3.50A {Schizosaccharomyces pombe} Back     alignment and structure
>3agk_A Peptide chain release factor subunit 1; translation; 2.10A {Aeropyrum pernix} Back     alignment and structure
>1dt9_A ERF1, protein (eukaryotic peptide chain release factor subunit 1); tRNA mimicry, protein sythesis, STOP codon recognition, peptidyl-tRNA hydrolysis; 2.70A {Homo sapiens} SCOP: c.55.4.2 d.79.3.2 d.91.1.1 PDB: 3e1y_A* 2ktu_A 2ktv_A 2lgt_A 2hst_A Back     alignment and structure
>3ir9_A Peptide chain release factor subunit 1; structural genomics, APC36528.1, C-terminal domain, PSI-2, protein structure initiative; 2.21A {Methanosarcina mazei} Back     alignment and structure
>1x52_A Pelota homolog, CGI-17; ERF1_3 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.79.3.2 Back     alignment and structure
>1xbi_A 50S ribosomal protein L7AE; alpha-beta-alpha sandwich fold, RNA binding protein/structural protein complex; HET: EPE; 1.45A {Methanocaldococcus jannaschii} SCOP: d.79.3.1 PDB: 1ra4_A* 1sds_A 3paf_A Back     alignment and structure
>3j21_Z 50S ribosomal protein L30E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 184
d2vgna2142 c.55.4.2 (A:136-277) Dom34 {Saccharomyces cerevisi 8e-54
d2qi2a2117 c.55.4.2 (A:127-243) Cell division protein pelota 2e-18
d1x52a1111 d.79.3.2 (A:8-118) Cell division protein pelota {H 4e-18
d2vgna3104 d.79.3.2 (A:278-381) Dom34 {Saccharomyces cerevisi 2e-15
d1dt9a2146 d.79.3.2 (A:277-422) C-terminal domain of eukaryot 2e-14
d2qi2a395 d.79.3.2 (A:244-338) Cell division protein pelota 2e-13
>d2vgna2 c.55.4.2 (A:136-277) Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 142 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: ERF1/Dom34 middle domain-like
domain: Dom34
species: Saccharomyces cerevisiae [TaxId: 4932]

 Score =  165 bits (420), Expect = 8e-54
 Identities = 40/130 (30%), Positives = 70/130 (53%), Gaps = 1/130 (0%)

Query: 1   MQEGLAHILLVGRSMTITRSRIETSIPRKHGPA-IAGYESALNKFFENVLQAFLKHVDFN 59
           +QEG+AH+ LV  S TI + +IE S+P+K     +  ++    KF++ +  A  K ++F+
Sbjct: 12  LQEGIAHVCLVTSSSTILKQKIEYSMPKKKRTTDVLKFDEKTEKFYKAIYSAMKKDLNFD 71

Query: 60  VVRCAVIASPGFTKDQFHRHLLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAP 119
            ++  ++ SPGF        +   AE    + I++NK    + H S+GY   + EVL  P
Sbjct: 72  KLKTIILCSPGFYAKILMDKIFQYAEEEHNKKILDNKGMFFIAHCSTGYLQGINEVLKNP 131

Query: 120 NVMNMIKDTK 129
              + ++DTK
Sbjct: 132 LYASKLQDTK 141
>d2qi2a2 c.55.4.2 (A:127-243) Cell division protein pelota {Thermoplasma acidophilum [TaxId: 2303]} Length = 117 Back     information, alignment and structure
>d1x52a1 d.79.3.2 (A:8-118) Cell division protein pelota {Human (Homo sapiens) [TaxId: 9606]} Length = 111 Back     information, alignment and structure
>d2vgna3 d.79.3.2 (A:278-381) Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} Length = 104 Back     information, alignment and structure
>d1dt9a2 d.79.3.2 (A:277-422) C-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 {Human (Homo sapiens) [TaxId: 9606]} Length = 146 Back     information, alignment and structure
>d2qi2a3 d.79.3.2 (A:244-338) Cell division protein pelota {Thermoplasma acidophilum [TaxId: 2303]} Length = 95 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query184
d2vgna2142 Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} 100.0
d2qi2a2117 Cell division protein pelota {Thermoplasma acidoph 99.95
d1dt9a1134 Middle domain of eukaryotic peptide chain release 99.88
d1x52a1111 Cell division protein pelota {Human (Homo sapiens) 99.76
d2vgna3104 Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} 99.67
d2qi2a395 Cell division protein pelota {Thermoplasma acidoph 99.6
d1dt9a2146 C-terminal domain of eukaryotic peptide chain rele 99.57
d2hoea2169 N-acetylglucosamine kinase {Thermotoga maritima [T 90.91
d1z05a2197 Transcriptional regulator VC2007 {Vibrio cholerae 85.19
d1z6ra3196 Mlc protein {Escherichia coli [TaxId: 562]} 84.4
d1t0kb_97 Eukaryotic ribosomal protein L30 (L30e) {Baker's y 81.53
>d2vgna2 c.55.4.2 (A:136-277) Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: ERF1/Dom34 middle domain-like
domain: Dom34
species: Saccharomyces cerevisiae [TaxId: 4932]

Probab=100.00  E-value=1.9e-38  Score=240.60  Aligned_cols=130  Identities=31%  Similarity=0.575  Sum_probs=118.5

Q ss_pred             CCcCeeEEEEEeCCeEEEEEEEEeeCCCCCCC-CcchhHHHHHHHHHHHHHHHHhccccCCcceEEEeCCcccHHHHHHH
Q 030017            1 MQEGLAHILLVGRSMTITRSRIETSIPRKHGP-AIAGYESALNKFFENVLQAFLKHVDFNVVRCAVIASPGFTKDQFHRH   79 (184)
Q Consensus         1 id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~-~~s~~~~~~~~ff~~i~~~l~~~~~~~~v~~ivIaGPGf~k~~f~~y   79 (184)
                      |++|+|+||+|+++++.++++|+++||+||+. ++|+|++++++||++|++++.++++++++++||||||||+|++|++|
T Consensus        12 m~eG~A~i~li~~~~t~~~~~Ie~~iP~K~~~~~~s~~~k~~~~Ff~~v~~~l~~~~~~~~~k~iIiaGPGf~K~~F~~y   91 (142)
T d2vgna2          12 LQEGIAHVCLVTSSSTILKQKIEYSMPKKKRTTDVLKFDEKTEKFYKAIYSAMKKDLNFDKLKTIILCSPGFYAKILMDK   91 (142)
T ss_dssp             EETTEEEEEEECSSCEEEEEEEEC---------CCSSCCHHHHHHHHHHHHHHHHHCCTTTCSEEEEEESTTHHHHHHHH
T ss_pred             EeCCcEEEEEEcCCEEEEEEEEEEeCCCCcCCCCccHHHHHHHHHHHHHHHHHHHHhCcccccEEEEeCCHHHHHHHHHH
Confidence            68999999999999999999999999999976 68999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccchhhhhccCcEEEEecCCCcchhHHHHhcCchhHHHhhhhhH
Q 030017           80 LLLEAERRQLRPIIENKSRIILVHTSSGYKHSLREVLDAPNVMNMIKDTKA  130 (184)
Q Consensus        80 l~~~~~~~~~~~l~~~~~k~~~v~~s~~~~~gl~E~l~~~~v~~~l~~~k~  130 (184)
                      +.+++.+...+.|.+++++|+++++|+||++||+|+|++|+++++|+|+|+
T Consensus        92 l~~~~~~~~~k~i~~~k~k~v~v~tSsg~~~gL~EvL~~~~v~~~l~dtK~  142 (142)
T d2vgna2          92 IFQYAEEEHNKKILDNKGMFFIAHCSTGYLQGINEVLKNPLYASKLQDTKY  142 (142)
T ss_dssp             HHHHHHHTTCHHHHTTGGGEEEEECSCSSTHHHHHHHHCGGGHHHHHHHHT
T ss_pred             HHHHhhhhhhhhHHhccCeEEEEEcCCCcHHHHHHHHcCHHHHHHHhhcCC
Confidence            999999999999999999999999999999999999999999999999985
>d2qi2a2 c.55.4.2 (A:127-243) Cell division protein pelota {Thermoplasma acidophilum [TaxId: 2303]} Back     information, alignment and structure
>d1dt9a1 c.55.4.2 (A:143-276) Middle domain of eukaryotic peptide chain release factor subunit 1, ERF1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1x52a1 d.79.3.2 (A:8-118) Cell division protein pelota {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2vgna3 d.79.3.2 (A:278-381) Dom34 {Saccharomyces cerevisiae [TaxId: 4932]} Back     information, alignment and structure
>d2qi2a3 d.79.3.2 (A:244-338) Cell division protein pelota {Thermoplasma acidophilum [TaxId: 2303]} Back     information, alignment and structure
>d1dt9a2 d.79.3.2 (A:277-422) C-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2hoea2 c.55.1.10 (A:200-368) N-acetylglucosamine kinase {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d1z05a2 c.55.1.10 (A:209-405) Transcriptional regulator VC2007 {Vibrio cholerae [TaxId: 666]} Back     information, alignment and structure
>d1z6ra3 c.55.1.10 (A:211-406) Mlc protein {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1t0kb_ d.79.3.1 (B:) Eukaryotic ribosomal protein L30 (L30e) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure