Citrus Sinensis ID: 029802

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-------
MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRMEDEL
cccccHHHHHHHHHHHHHHHcccHHHHHccccccccccccccEEEEEEccEEEEEHHHHHHHHcccccccEEEcEEEEEEEEEccEEEEEEccHHHHHHHcccEEEEcccccccEEcccccccccccccccccccccEEEEEEcccccEEEEEEEccHHHHHcccccEEEEEEccccEEEEcccccc
cccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEcccEEEEEcHHHHHHHHcccHcccEEEEEEEccccccccEEEEEEHHHHHHHHHccEEEEcccccccEEcccHHHHccccEEccccccccEEEEEEccccccccEEEEccHHHHHccccccEEEEEEcccHHHHcccccc
mrpldeaeTTAVFEKLFKFTGnnlknivenpshegpdpnpgrycfrlhknRVYYVSESLVKratniarpklvslgtcigkfthggkfHLTIQALSLVAANARHkvwikptsemsflygnhvlkgglgritdsiapgdgvvvysmsdvpLGFGVAAKSMqdcrkldpngivvlhqsdigeylRMEDEL
mrpldeaeTTAVFEKLFKFTGNNLKNIVenpshegpdpnPGRYCFRLHKNRVYYVSESLvkratniarpklvSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKldpngivvlhqsdigeylrmedel
MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRMEDEL
**********AVFEKLFKFTGNNLKNI**************RYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY*******
*RPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRMED**
********TTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRMEDEL
*RPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRM****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEYLRMEDEL
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 ?
Query187 2.2.26 [Sep-21-2011]
A4QND5180 60S ribosome subunit biog yes no 0.957 0.994 0.625 6e-64
Q6DFH9180 60S ribosome subunit biog N/A no 0.957 0.994 0.625 7e-64
Q4T2X8180 60S ribosome subunit biog N/A no 0.957 0.994 0.614 6e-63
Q9WV50180 60S ribosome subunit biog yes no 0.957 0.994 0.614 1e-61
Q5R9J1180 60S ribosome subunit biog yes no 0.957 0.994 0.609 2e-61
Q9Y221180 60S ribosome subunit biog yes no 0.957 0.994 0.609 2e-61
Q56P27180 60S ribosome subunit biog yes no 0.957 0.994 0.609 2e-61
Q9CXK8180 60S ribosome subunit biog yes no 0.957 0.994 0.604 3e-61
Q503P2180 60S ribosome subunit biog yes no 0.957 0.994 0.582 6e-61
B0G104179 60S ribosome subunit biog yes no 0.946 0.988 0.535 3e-55
>sp|A4QND5|NIP7_XENTR 60S ribosome subunit biogenesis protein NIP7 homolog OS=Xenopus tropicalis GN=nip7 PE=2 SV=1 Back     alignment and function desciption
 Score =  243 bits (620), Expect = 6e-64,   Method: Compositional matrix adjust.
 Identities = 117/187 (62%), Positives = 141/187 (75%), Gaps = 8/187 (4%)

Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MRPL + ET A+FEKL K+ G N+K +V+ P         G YCFRLH +RVYYVSE ++
Sbjct: 1   MRPLTDEETKAMFEKLSKYIGENIKLLVDRPD--------GTYCFRLHNDRVYYVSERIL 52

Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
           K ATNIAR KLVSLGTC GKFT   KF L + AL  +A  A++KVW+KP +E SFLYGNH
Sbjct: 53  KLATNIARDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWVKPGAEQSFLYGNH 112

Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
           VLK GLGRIT++ +   GVVVYSM+D+PLGFGVAAKS Q+CRKLDP  IVV HQ+D+GEY
Sbjct: 113 VLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQECRKLDPMAIVVFHQADVGEY 172

Query: 181 LRMEDEL 187
           +R ED L
Sbjct: 173 IRHEDTL 179
Required for proper 27S pre-rRNA processing and 60S ribosome subunit assembly.
Xenopus tropicalis (taxid: 8364)
>sp|Q6DFH9|NIP7_XENLA 60S ribosome subunit biogenesis protein NIP7 homolog OS=Xenopus laevis GN=nip7 PE=2 SV=1 Back     alignment and function description
>sp|Q4T2X8|NIP7_TETNG 60S ribosome subunit biogenesis protein NIP7 homolog OS=Tetraodon nigroviridis GN=nip7 PE=3 SV=1 Back     alignment and function description
>sp|Q9WV50|NIP7_RAT 60S ribosome subunit biogenesis protein NIP7 homolog OS=Rattus norvegicus GN=Nip7 PE=2 SV=1 Back     alignment and function description
>sp|Q5R9J1|NIP7_PONAB 60S ribosome subunit biogenesis protein NIP7 homolog OS=Pongo abelii GN=NIP7 PE=2 SV=1 Back     alignment and function description
>sp|Q9Y221|NIP7_HUMAN 60S ribosome subunit biogenesis protein NIP7 homolog OS=Homo sapiens GN=NIP7 PE=1 SV=1 Back     alignment and function description
>sp|Q56P27|NIP7_PIG 60S ribosome subunit biogenesis protein NIP7 homolog OS=Sus scrofa GN=NIP7 PE=2 SV=1 Back     alignment and function description
>sp|Q9CXK8|NIP7_MOUSE 60S ribosome subunit biogenesis protein NIP7 homolog OS=Mus musculus GN=Nip7 PE=2 SV=1 Back     alignment and function description
>sp|Q503P2|NIP7_DANRE 60S ribosome subunit biogenesis protein NIP7 homolog OS=Danio rerio GN=nip7 PE=2 SV=1 Back     alignment and function description
>sp|B0G104|NIP7_DICDI 60S ribosome subunit biogenesis protein NIP7 homolog OS=Dictyostelium discoideum GN=nip7 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 ?
Query187
225434205187 PREDICTED: 60S ribosome subunit biogenes 1.0 1.0 0.882 2e-96
225432288187 PREDICTED: 60S ribosome subunit biogenes 1.0 1.0 0.877 2e-95
449432838187 PREDICTED: 60S ribosome subunit biogenes 1.0 1.0 0.871 8e-95
449495359187 PREDICTED: 60S ribosome subunit biogenes 1.0 1.0 0.866 3e-94
356562795187 PREDICTED: 60S ribosome subunit biogenes 1.0 1.0 0.834 9e-93
388510748187 unknown [Medicago truncatula] 1.0 1.0 0.844 3e-92
255551721187 60S ribosome subunit biogenesis protein 1.0 1.0 0.839 6e-91
297804652187 At4g15770 [Arabidopsis lyrata subsp. lyr 1.0 1.0 0.828 9e-90
240255874187 RNA binding protein [Arabidopsis thalian 1.0 1.0 0.828 1e-89
351723993185 uncharacterized protein LOC100527285 [Gl 0.973 0.983 0.813 2e-87
>gi|225434205|ref|XP_002279785.1| PREDICTED: 60S ribosome subunit biogenesis protein NIP7 homolog [Vitis vinifera] gi|147783622|emb|CAN68143.1| hypothetical protein VITISV_035660 [Vitis vinifera] Back     alignment and taxonomy information
 Score =  356 bits (914), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 165/187 (88%), Positives = 179/187 (95%)

Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MRPLDE ETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRL KNRVYYVSESLV
Sbjct: 1   MRPLDENETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLQKNRVYYVSESLV 60

Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
           KRATNI R +LVSLGTCIGKFT GGKFHLT+Q+++L+AANA+HKVW+KPTSEMSFLYGNH
Sbjct: 61  KRATNIGRAQLVSLGTCIGKFTKGGKFHLTVQSVNLLAANAKHKVWLKPTSEMSFLYGNH 120

Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
           VLKGGLGRIT++I  GDG+VV+SMSDVPLGFG+AAKS QDCRKLDPNGIVVLHQ+DIGEY
Sbjct: 121 VLKGGLGRITENIVAGDGIVVFSMSDVPLGFGIAAKSTQDCRKLDPNGIVVLHQADIGEY 180

Query: 181 LRMEDEL 187
           LRMEDEL
Sbjct: 181 LRMEDEL 187

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225432288|ref|XP_002273010.1| PREDICTED: 60S ribosome subunit biogenesis protein NIP7 homolog [Vitis vinifera] Back     alignment and taxonomy information
>gi|449432838|ref|XP_004134205.1| PREDICTED: 60S ribosome subunit biogenesis protein NIP7 homolog [Cucumis sativus] Back     alignment and taxonomy information
>gi|449495359|ref|XP_004159812.1| PREDICTED: 60S ribosome subunit biogenesis protein NIP7 homolog [Cucumis sativus] Back     alignment and taxonomy information
>gi|356562795|ref|XP_003549654.1| PREDICTED: 60S ribosome subunit biogenesis protein NIP7 homolog [Glycine max] Back     alignment and taxonomy information
>gi|388510748|gb|AFK43440.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|255551721|ref|XP_002516906.1| 60S ribosome subunit biogenesis protein NIP7, putative [Ricinus communis] gi|223543994|gb|EEF45520.1| 60S ribosome subunit biogenesis protein NIP7, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|297804652|ref|XP_002870210.1| At4g15770 [Arabidopsis lyrata subsp. lyrata] gi|297316046|gb|EFH46469.1| At4g15770 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|240255874|ref|NP_193312.5| RNA binding protein [Arabidopsis thaliana] gi|45752644|gb|AAS76220.1| At4g15770 [Arabidopsis thaliana] gi|332658250|gb|AEE83650.1| RNA binding protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|351723993|ref|NP_001237554.1| uncharacterized protein LOC100527285 [Glycine max] gi|255631952|gb|ACU16356.1| unknown [Glycine max] 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 ?
Query187
TAIR|locus:2130704187 AT4G15770 [Arabidopsis thalian 1.0 1.0 0.828 1.5e-83
UNIPROTKB|E1C494180 NIP7 "60S ribosome subunit bio 0.957 0.994 0.625 6.6e-58
UNIPROTKB|E1BC14180 NIP7 "60S ribosome subunit bio 0.957 0.994 0.620 2.5e-56
RGD|620069180 Nip7 "NIP7, nucleolar pre-rRNA 0.957 0.994 0.614 2.5e-56
UNIPROTKB|J9NWQ0190 NIP7 "60S ribosome subunit bio 0.957 0.942 0.614 4.2e-56
UNIPROTKB|Q9Y221180 NIP7 "60S ribosome subunit bio 0.957 0.994 0.609 4.2e-56
UNIPROTKB|Q56P27180 NIP7 "60S ribosome subunit bio 0.957 0.994 0.609 6.8e-56
MGI|MGI:1913414180 Nip7 "nuclear import 7 homolog 0.957 0.994 0.604 6.8e-56
ZFIN|ZDB-GENE-050522-256180 nip7 "nuclear import 7 homolog 0.957 0.994 0.582 1.8e-55
DICTYBASE|DDB_G0295477179 nip7 "60S ribosome subunit bio 0.946 0.988 0.540 2.2e-50
TAIR|locus:2130704 AT4G15770 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 837 (299.7 bits), Expect = 1.5e-83, P = 1.5e-83
 Identities = 155/187 (82%), Positives = 169/187 (90%)

Query:     1 MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
             MRPLDE ETT VFEKLFKF GNNLK IVENPS EGP+  PG YCFRL KNRVYYVSE+LV
Sbjct:     1 MRPLDETETTVVFEKLFKFVGNNLKKIVENPSDEGPESTPGSYCFRLQKNRVYYVSEALV 60

Query:    61 KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
             KRATNI+R  LVS GTCIGK+TH G FHLTI +L+++AANA+HKVW+KPTSEMSFLYGNH
Sbjct:    61 KRATNISRKNLVSFGTCIGKYTHAGSFHLTIMSLNILAANAKHKVWLKPTSEMSFLYGNH 120

Query:   121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
             VLKGGLGRITDSI PGDGVVV+SMSDVPLGFG+AAKS QDCRKLDPNGIVVLHQ+DIGEY
Sbjct:   121 VLKGGLGRITDSIVPGDGVVVFSMSDVPLGFGIAAKSTQDCRKLDPNGIVVLHQADIGEY 180

Query:   181 LRMEDEL 187
             LR ED+L
Sbjct:   181 LRGEDDL 187
GO:0003723 "RNA binding" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0042254 "ribosome biogenesis" evidence=ISS
GO:0042255 "ribosome assembly" evidence=IEA
GO:0005829 "cytosol" evidence=IDA
GO:0001510 "RNA methylation" evidence=RCA
GO:0006626 "protein targeting to mitochondrion" evidence=RCA
UNIPROTKB|E1C494 NIP7 "60S ribosome subunit biogenesis protein NIP7 homolog" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|E1BC14 NIP7 "60S ribosome subunit biogenesis protein NIP7 homolog" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
RGD|620069 Nip7 "NIP7, nucleolar pre-rRNA processing protein" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|J9NWQ0 NIP7 "60S ribosome subunit biogenesis protein NIP7 homolog" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q9Y221 NIP7 "60S ribosome subunit biogenesis protein NIP7 homolog" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q56P27 NIP7 "60S ribosome subunit biogenesis protein NIP7 homolog" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
MGI|MGI:1913414 Nip7 "nuclear import 7 homolog (S. cerevisiae)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050522-256 nip7 "nuclear import 7 homolog (S. cerevisiae)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0295477 nip7 "60S ribosome subunit biogenesis protein" [Dictyostelium discoideum (taxid:44689)] 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

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9WV50NIP7_RATNo assigned EC number0.61490.95720.9944yesno
Q9Y221NIP7_HUMANNo assigned EC number0.60960.95720.9944yesno
Q56P27NIP7_PIGNo assigned EC number0.60960.95720.9944yesno
A4QND5NIP7_XENTRNo assigned EC number0.62560.95720.9944yesno
Q6DFH9NIP7_XENLANo assigned EC number0.62560.95720.9944N/Ano
B0G104NIP7_DICDINo assigned EC number0.53510.94650.9888yesno
Q9CXK8NIP7_MOUSENo assigned EC number0.60420.95720.9944yesno
Q5R9J1NIP7_PONABNo assigned EC number0.60960.95720.9944yesno
Q1MTQ9NIP7_SCHPONo assigned EC number0.53470.95720.9944yesno
Q503P2NIP7_DANRENo assigned EC number0.58280.95720.9944yesno
Q08962NIP7_YEASTNo assigned EC number0.52940.95720.9889yesno
Q4T2X8NIP7_TETNGNo assigned EC number0.61490.95720.9944N/Ano

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:
GSVIVG00034742001
SubName- Full=Putative uncharacterized protein (Chromosome chr5 scaffold_72, whole genome shotgun sequence); (187 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00028481001
SubName- Full=Chromosome chr7 scaffold_44, whole genome shotgun sequence; (316 aa)
   ••   0.794
GSVIVG00033408001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (430 aa)
   •• • 0.794
GSVIVG00026600001
SubName- Full=Chromosome chr12 scaffold_38, whole genome shotgun sequence; (229 aa)
   ••   0.779
GSVIVG00020673001
SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (607 aa)
   •• • 0.733
GSVIVG00021672001
SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (315 aa)
   ••   0.730
GSVIVG00021307001
SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (586 aa)
   •  • 0.713
GSVIVG00019318001
SubName- Full=Putative uncharacterized protein (Chromosome chr7 scaffold_20, whole genome shotg [...] (245 aa)
   •• • 0.708
GSVIVG00036355001
SubName- Full=Chromosome chr3 scaffold_8, whole genome shotgun sequence; (842 aa)
   •• • 0.706
GSVIVG00038090001
SubName- Full=Chromosome chr14 scaffold_9, whole genome shotgun sequence; (182 aa)
   •    0.704
GSVIVG00037695001
SubName- Full=Chromosome undetermined scaffold_91, whole genome shotgun sequence; (245 aa)
   •  • 0.698

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 ?
Query187
COG1374176 COG1374, NIP7, Protein involved in ribosomal bioge 4e-43
smart0035976 smart00359, PUA, Putative RNA-binding Domain in Ps 4e-16
pfam03657161 pfam03657, UPF0113, Uncharacterized protein family 2e-05
>gnl|CDD|224293 COG1374, NIP7, Protein involved in ribosomal biogenesis, contains PUA domain [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score =  141 bits (357), Expect = 4e-43
 Identities = 63/185 (34%), Positives = 88/185 (47%), Gaps = 9/185 (4%)

Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MR L   E      KL  + G+ ++  +      G   +   +  ++    VY V+E + 
Sbjct: 1   MRGLKPEEGKMRVRKLSSWEGDLIRKELSKY---GELDHLFFHLLKVKDRDVYEVNEVVW 57

Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
           K A +I R    SLGT  GK   GG F   +++L  +A  A  K ++K   EM FLYGN 
Sbjct: 58  KLAESIERKNPYSLGTFFGKRVKGGLFRKHVESLEELARIAIIKNYVKERGEMLFLYGND 117

Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
            LK  +  I D I    GV V++M+DVPLG GV A S  +  +L  N        D+GEY
Sbjct: 118 -LKDHVKEIIDEIPENGGVFVFNMNDVPLGIGVGALSPSEDGRLIKNA-----LKDVGEY 171

Query: 181 LRMED 185
           LR   
Sbjct: 172 LRRGG 176

Length = 176
>gnl|CDD|214635 smart00359, PUA, Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase Back     alignment and domain information
>gnl|CDD|217662 pfam03657, UPF0113, Uncharacterized protein family (UPF0113) Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 187
KOG3492180 consensus Ribosome biogenesis protein NIP7 [Transl 100.0
PF03657162 UPF0113: Uncharacterised protein family (UPF0113); 100.0
COG1374176 NIP7 Protein involved in ribosomal biogenesis, con 100.0
smart0035977 PUA Putative RNA-binding Domain in PseudoUridine s 98.8
PRK14560160 putative RNA-binding protein; Provisional 98.68
TIGR03684150 arCOG00985 arCOG04150 universal archaeal PUA-domai 98.64
TIGR00451107 unchar_dom_2 uncharacterized domain 2. This unchar 98.45
PRK13534639 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Pr 98.1
PRK13795 636 hypothetical protein; Provisional 97.96
PRK13794 479 hypothetical protein; Provisional 97.94
PF0147274 PUA: PUA domain; InterPro: IPR002478 The PUA (Pseu 97.93
COG2016161 Predicted RNA-binding protein (contains PUA domain 97.49
COG1370155 Prefoldin, molecular chaperone implicated in de no 97.25
COG5270202 PUA domain (predicted RNA-binding domain) [Transla 97.1
PF13636102 Nol1_Nop2_Fmu_2: pre-rRNA processing and ribosome 97.0
TIGR00432540 arcsn_tRNA_tgt tRNA-guanine transglycosylase, arch 96.9
PRK04270300 H/ACA RNA-protein complex component Cbf5p; Reviewe 95.7
PRK11933470 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; 95.67
COG3270127 Uncharacterized conserved protein [Function unknow 94.77
TIGR00425322 CBF5 rRNA pseudouridine synthase, putative. This f 94.44
PRK05429372 gamma-glutamyl kinase; Provisional 94.37
TIGR01027363 proB glutamate 5-kinase. Bacterial ProB proteins h 92.66
PRK08557 417 hypothetical protein; Provisional 92.47
COG1549519 Queuine tRNA-ribosyltransferases, contain PUA doma 91.01
>KOG3492 consensus Ribosome biogenesis protein NIP7 [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
Probab=100.00  E-value=6.1e-100  Score=620.57  Aligned_cols=179  Identities=67%  Similarity=1.118  Sum_probs=178.1

Q ss_pred             CCCCCHHHHHHHHHHHhhhhcccccccccCCCCCCCCCCCCceEEEeeCceEEEEcHHHHHhhccCCCCCeeeeeeeEEE
Q 029802            1 MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGK   80 (187)
Q Consensus         1 MR~LteeE~~~vf~KL~kyiG~nl~~li~~~~~~~~~~~d~~y~frl~k~rVyyvs~~l~~~a~~i~r~~L~S~Gtc~Gk   80 (187)
                      |||||+||++.+||||++|||+|+..||+||        |++||||+||+|||||||.++++|++|+|+||+|+||||||
T Consensus         1 MR~Lt~Eetk~vfekla~yIG~Nv~~lidr~--------D~~~cfrlhkdRVyyvsEr~~k~a~~isr~~L~s~Gtc~GK   72 (180)
T KOG3492|consen    1 MRPLTEEETKVVFEKLAKYIGDNVSHLIDRP--------DGTYCFRLHKDRVYYVSERIMKLAACISRKNLVSLGTCFGK   72 (180)
T ss_pred             CCCCcHHHHHHHHHHHHHHHhhhhheeecCC--------CCceeeEeeCceEEeehHHHHHHHhhhcccceeEEeEEEee
Confidence            9999999999999999999999999999999        99999999999999999999999999999999999999999


Q ss_pred             eeecceEEEEeeehHhHhhcccceEEeCCCCccccccccccccccccccccccCCCCeEEEEecCCCceeEEeeeechhh
Q 029802           81 FTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQD  160 (187)
Q Consensus        81 FtKs~kFrl~itaL~~La~~a~~Kvwvk~~~E~~FLYGn~V~Ks~l~rite~~~~~~gVvV~n~nd~pLGfGv~akst~~  160 (187)
                      ||||||||||||||+||||||+|||||||+|||+|||||||+||||+||||++|+|+|||||||||+||||||+||||++
T Consensus        73 FTKt~kfrlhitaL~~La~~Ak~KvWiKp~~Em~flYGNhvlKs~vgRitd~~p~~~GVvVysm~DvPLGFGv~Akst~d  152 (180)
T KOG3492|consen   73 FTKTGKFRLHITALDYLAPYAKYKVWIKPNAEMQFLYGNHVLKSGVGRITDGIPQHQGVVVYSMNDVPLGFGVTAKSTQD  152 (180)
T ss_pred             eeccceEEEeeeehhhhhhhhheeEEeccCcccceeecccchhcccceecCCCCCcceEEEEeccCCccccceeecCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCCCeeEEEecccceeeeccccCC
Q 029802          161 CRKLDPNGIVVLHQSDIGEYLRMEDEL  187 (187)
Q Consensus       161 ~~~~dp~~ivv~~qaD~GeYLR~E~~l  187 (187)
                      ||++||++|||+||||+|||||+||+|
T Consensus       153 ~r~~dp~aiv~~hQaDiGEYlR~E~~l  179 (180)
T KOG3492|consen  153 CRKADPTAIVVLHQADIGEYLRNEDTL  179 (180)
T ss_pred             ccccCCcEEEEEEecchHHHhhccccc
Confidence            999999999999999999999999986

>PF03657 UPF0113: Uncharacterised protein family (UPF0113); InterPro: IPR005155 This entry represents PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain containing proteins such as the ribosomal biogenesis factor NIP7 [, ] Back     alignment and domain information
>COG1374 NIP7 Protein involved in ribosomal biogenesis, contains PUA domain [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase Back     alignment and domain information
>PRK14560 putative RNA-binding protein; Provisional Back     alignment and domain information
>TIGR03684 arCOG00985 arCOG04150 universal archaeal PUA-domain protein Back     alignment and domain information
>TIGR00451 unchar_dom_2 uncharacterized domain 2 Back     alignment and domain information
>PRK13534 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Provisional Back     alignment and domain information
>PRK13795 hypothetical protein; Provisional Back     alignment and domain information
>PRK13794 hypothetical protein; Provisional Back     alignment and domain information
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found [] Back     alignment and domain information
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>COG1370 Prefoldin, molecular chaperone implicated in de novo protein folding, alpha subunit [Posttranslational modification, protein turnover, chaperones] Back     alignment and domain information
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF13636 Nol1_Nop2_Fmu_2: pre-rRNA processing and ribosome biogenesis; PDB: 3M4X_A 3M6U_B 3M6V_B 3M6W_A 3M6X_A Back     alignment and domain information
>TIGR00432 arcsn_tRNA_tgt tRNA-guanine transglycosylase, archaeosine-15-forming Back     alignment and domain information
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed Back     alignment and domain information
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed Back     alignment and domain information
>COG3270 Uncharacterized conserved protein [Function unknown] Back     alignment and domain information
>TIGR00425 CBF5 rRNA pseudouridine synthase, putative Back     alignment and domain information
>PRK05429 gamma-glutamyl kinase; Provisional Back     alignment and domain information
>TIGR01027 proB glutamate 5-kinase Back     alignment and domain information
>PRK08557 hypothetical protein; Provisional Back     alignment and domain information
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis] 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 ?
Query187
1sqw_A188 Crystal Structure Of Kd93, A Novel Protein Expresse 2e-61
1t5y_A190 Crystal Structure Of Northeast Structural Genomics 1e-60
>pdb|1SQW|A Chain A, Crystal Structure Of Kd93, A Novel Protein Expressed In The Human Pro Length = 188 Back     alignment and structure 
Iteration: 1

 Score =  231 bits (589), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 112/182 (61%), Positives = 135/182 (74%), Gaps = 8/182 (4%)
Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MRPL E ET  +FEK+ K+ G NL+ +V+ P         G YCFRLH +RVYYVSE ++
Sbjct: 1   MRPLTEEETRVMFEKIAKYIGENLQLLVDRPD--------GTYCFRLHNDRVYYVSEKIM 52
Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
           K A NI+  KLVSLGTC GKFT   KF L + AL  +A  A++KVWIKP +E SFLYGNH
Sbjct: 53  KLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNH 112
Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
           VLK GLGRIT++ +   GVVVYSM+D+PLGFGVAAKS QDCRK+DP  IVV HQ+DIGEY
Sbjct: 113 VLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEY 172
Query: 181 LR 182
           +R
Sbjct: 173 VR 174
>pdb|1T5Y|A Chain A, Crystal Structure Of Northeast Structural Genomics Consortium Target Hr2118: A Human Homolog Of Saccharomyces Cerevisiae Nip7p Length = 190 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 ?
Query187
1sqw_A188 Saccharomyces cerevisiae NIP7P homolog; PUA, unkno 1e-103
2p38_A166 Protein involved in ribosomal biogenesis; two alph 6e-45
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-06
3u28_A400 H/ACA ribonucleoprotein complex subunit 4; pseudou 5e-05
1q7h_A153 Conserved hypothetical protein; structural genomic 9e-05
3zv0_C195 H/ACA ribonucleoprotein complex subunit 4; cell cy 1e-04
2apo_A357 Probable tRNA pseudouridine synthase B; protein-pr 1e-04
2aus_C334 Pseudouridine synthase; isomerase, structural prot 2e-04
>1sqw_A Saccharomyces cerevisiae NIP7P homolog; PUA, unknown function; 1.90A {Homo sapiens} SCOP: b.122.1.1 d.17.6.3 PDB: 1t5y_A Length = 188 Back     alignment and structure
 Score =  293 bits (751), Expect = e-103
 Identities = 114/187 (60%), Positives = 138/187 (73%), Gaps = 8/187 (4%)

Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MRPL E ET  +FEK+ K+ G NL+ +V+ P         G YCFRLH +RVYYVSE ++
Sbjct: 1   MRPLTEEETRVMFEKIAKYIGENLQLLVDRPD--------GTYCFRLHNDRVYYVSEKIM 52

Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNH 120
           K A NI+  KLVSLGTC GKFT   KF L + AL  +A  A++KVWIKP +E SFLYGNH
Sbjct: 53  KLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNH 112

Query: 121 VLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQDCRKLDPNGIVVLHQSDIGEY 180
           VLK GLGRIT++ +   GVVVYSM+D+PLGFGVAAKS QDCRK+DP  IVV HQ+DIGEY
Sbjct: 113 VLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEY 172

Query: 181 LRMEDEL 187
           +R E+ L
Sbjct: 173 VRHEETL 179
>2p38_A Protein involved in ribosomal biogenesis; two alpha/beta domains, PUA domain, biosynthetic protein; 1.80A {Pyrococcus abyssi} 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
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A Length = 400 Back     alignment and structure
>1q7h_A Conserved hypothetical protein; structural genomics, MCSG, PSI, PR structure initiative; 2.10A {Thermoplasma acidophilum dsm 1728} SCOP: b.122.1.1 d.17.6.2 Length = 153 Back     alignment and structure
>3zv0_C H/ACA ribonucleoprotein complex subunit 4; cell cycle, RNP assembly, X-linked dyskeratosis congenita; 2.80A {Saccharomyces cerevisiae} Length = 195 Back     alignment and structure
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: b.122.1.1 d.265.1.2 Length = 357 Back     alignment and structure
>2aus_C Pseudouridine synthase; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A* 2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A Length = 334 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query187
1sqw_A188 Saccharomyces cerevisiae NIP7P homolog; PUA, unkno 100.0
2p38_A166 Protein involved in ribosomal biogenesis; two alph 100.0
1q7h_A153 Conserved hypothetical protein; structural genomic 99.86
3d79_A179 PUA domain, putative uncharacterized protein PH073 98.24
2q07_A306 Uncharacterized protein AF0587; monomer, structura 98.07
2cx0_A187 Hypothetical protein APE0525; PUA domain, structur 97.98
3r90_A188 Malignant T cell-amplified sequence 1; structural 97.85
3zv0_C195 H/ACA ribonucleoprotein complex subunit 4; cell cy 97.48
1iq8_A582 Archaeosine tRNA-guanine transglycosylase; (alpha/ 97.48
2frx_A479 Hypothetical protein YEBU; rossmann-type S-adenosy 96.78
3m4x_A456 NOL1/NOP2/SUN family protein; mtase domain, PUA do 96.19
3u28_A400 H/ACA ribonucleoprotein complex subunit 4; pseudou 96.1
3m6w_A464 RRNA methylase; rRNA methyltransferase, 5-methylcy 95.25
2aus_C334 Pseudouridine synthase; isomerase, structural prot 91.21
2apo_A357 Probable tRNA pseudouridine synthase B; protein-pr 90.66
3c0k_A 396 UPF0064 protein YCCW; PUA domain, adoMet dependent 88.99
2j5v_A367 Glutamate 5-kinase; proline biosynthesis, gamma gl 88.09
>1sqw_A Saccharomyces cerevisiae NIP7P homolog; PUA, unknown function; 1.90A {Homo sapiens} SCOP: b.122.1.1 d.17.6.3 PDB: 1t5y_A Back     alignment and structure
Probab=100.00  E-value=1.5e-85  Score=547.39  Aligned_cols=179  Identities=64%  Similarity=1.067  Sum_probs=175.1

Q ss_pred             CCCCCHHHHHHHHHHHhhhhcccccccccCCCCCCCCCCCCceEEEeeCceEEEEcHHHHHhhccCCCCCeeeeeeeEEE
Q 029802            1 MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGK   80 (187)
Q Consensus         1 MR~LteeE~~~vf~KL~kyiG~nl~~li~~~~~~~~~~~d~~y~frl~k~rVyyvs~~l~~~a~~i~r~~L~S~Gtc~Gk   80 (187)
                      |||||++|+++||+||++|||.|++.|++||        |++||||+||+||||||++|++.|++|+|++|+|+||||||
T Consensus         1 mR~Lt~~E~~~vf~kL~~yiG~n~~~li~~~--------~~~~~frl~~~rVyyv~~~i~~~a~~i~r~~l~s~Gtc~Gk   72 (188)
T 1sqw_A            1 MRPLTEEETRVMFEKIAKYIGENLQLLVDRP--------DGTYCFRLHNDRVYYVSEKIMKLAANISGDKLVSLGTCFGK   72 (188)
T ss_dssp             CEECCHHHHHHHHHHHHHHHGGGTHHHHEET--------TEEEEEEEETTEEEEEEHHHHHTTTSSCHHHHHHHSEEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHhccCHHHHhcCC--------CCceEEEecCCEEEEECHHHHHHHhcCCcCCeeEeeeEEEE
Confidence            9999999999999999999999999999998        89999999999999999999999999999999999999999


Q ss_pred             eeecceEEEEeeehHhHhhcccceEEeCCCCccccccccccccccccccccccCCCCeEEEEecCCCceeEEeeeechhh
Q 029802           81 FTHGGKFHLTIQALSLVAANARHKVWIKPTSEMSFLYGNHVLKGGLGRITDSIAPGDGVVVYSMSDVPLGFGVAAKSMQD  160 (187)
Q Consensus        81 FtKs~kFrl~itaL~~La~~a~~Kvwvk~~~E~~FLYGn~V~Ks~l~rite~~~~~~gVvV~n~nd~pLGfGv~akst~~  160 (187)
                      |||+|||+|||||+++||||++|||||||+|||+|||||||+|+||+||||++|+++||||+||||+|||||++++|++|
T Consensus        73 ftk~gkF~L~It~l~~La~~~~~kV~Vk~~~E~~flyG~nVfk~~V~~i~e~i~~~~~VvV~n~~d~pLG~G~a~~s~~e  152 (188)
T 1sqw_A           73 FTKTHKFRLHVTALDYLAPYAKYKVWIKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYSMADIPLGFGVAAKSTQD  152 (188)
T ss_dssp             ECTTSCEEECGGGHHHHGGGCSCEEEECHHHHHHHTTTCCEEGGGEEEECTTCCTTCEEEEEETTCCEEEEEEESSCHHH
T ss_pred             EecCCcEEEchhHHHHhhhccCcEEEECCCceeeEEeccchhHHhhhhcCCCCCCCCEEEEEeCCCCEEEEEEeecCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCCCeeEEEecccceeeeccccCC
Q 029802          161 CRKLDPNGIVVLHQSDIGEYLRMEDEL  187 (187)
Q Consensus       161 ~~~~dp~~ivv~~qaD~GeYLR~E~~l  187 (187)
                      |++++|+++||+||||+|||||+||+|
T Consensus       153 ~~~~~~~~~vv~~q~D~GeYLR~e~~~  179 (188)
T 1sqw_A          153 CRKVDPMAIVVFHQADIGEYVRHEETL  179 (188)
T ss_dssp             HHHSCTTSEEEEEEEEGGGTCSCC---
T ss_pred             HHhcCCCcEEEEEcccceeeeEcCcee
Confidence            999999999999999999999999986
>2p38_A Protein involved in ribosomal biogenesis; two alpha/beta domains, PUA domain, biosynthetic protein; 1.80A {Pyrococcus abyssi} Back     alignment and structure
>1q7h_A Conserved hypothetical protein; structural genomics, MCSG, PSI, PR structure initiative; 2.10A {Thermoplasma acidophilum dsm 1728} SCOP: b.122.1.1 d.17.6.2 Back     alignment and structure
>3d79_A PUA domain, putative uncharacterized protein PH0734; unknown function; 1.73A {Pyrococcus horikoshii} Back     alignment and structure
>2q07_A Uncharacterized protein AF0587; monomer, structural genomics, PSI-2, protein structure initiative; 2.04A {Archaeoglobus fulgidus dsm 4304} SCOP: b.122.1.1 c.18.1.4 d.17.6.5 Back     alignment and structure
>2cx0_A Hypothetical protein APE0525; PUA domain, structural genomics, NPPSFA, national project on structural and functional analyses; 1.80A {Aeropyrum pernix} SCOP: b.122.1.1 d.17.6.4 PDB: 2cx1_A* 1zs7_A Back     alignment and structure
>3r90_A Malignant T cell-amplified sequence 1; structural genomics consortium, surface entropy reduction, S binding protein; 1.70A {Homo sapiens} Back     alignment and structure
>3zv0_C H/ACA ribonucleoprotein complex subunit 4; cell cycle, RNP assembly, X-linked dyskeratosis congenita; 2.80A {Saccharomyces cerevisiae} Back     alignment and structure
>1iq8_A Archaeosine tRNA-guanine transglycosylase; (alpha/beta)8 barrel, riken structural genomics/proteomics initiative, RSGI; 2.20A {Pyrococcus horikoshii} SCOP: b.122.1.1 c.1.20.1 d.17.6.1 PDB: 1it7_A* 1it8_A* 1j2b_A Back     alignment and structure
>2frx_A Hypothetical protein YEBU; rossmann-type S-adenosylmethionine-dependent methyltransfera domain; 2.90A {Escherichia coli} Back     alignment and structure
>3m4x_A NOL1/NOP2/SUN family protein; mtase domain, PUA domain, RRM motif, transferase; 2.28A {Enterococcus faecium} Back     alignment and structure
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A Back     alignment and structure
>3m6w_A RRNA methylase; rRNA methyltransferase, 5-methylcytidine, RSMF, adoMet, MULT specific, methyltransferase, transferase; HET: CXM SAM; 1.30A {Thermus thermophilus} PDB: 3m6v_A* 3m6u_A* 3m6x_A* Back     alignment and structure
>2aus_C Pseudouridine synthase; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A* 2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A Back     alignment and structure
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: b.122.1.1 d.265.1.2 Back     alignment and structure
>3c0k_A UPF0064 protein YCCW; PUA domain, adoMet dependent methyltransferase fold; 2.00A {Escherichia coli K12} Back     alignment and structure
>2j5v_A Glutamate 5-kinase; proline biosynthesis, gamma glutamyl kinase, amino-acid biosynthesis, transferase, feedback regulation, PUA domain; HET: RGP; 2.5A {Escherichia coli} PDB: 2j5t_A* 2w21_A 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 187
d1sqwa294 d.17.6.3 (A:1-94) Nip7p homolog, N-terminal domain 3e-52
d1sqwa176 b.122.1.1 (A:95-170) Nip7p homolog, C-terminal dom 3e-47
d1r3ea181 b.122.1.1 (A:238-318) Pseudouridine synthase II Tr 1e-04
d2ey4a184 b.122.1.1 (A:253-336) Pseudouridine synthase II Tr 2e-04
d1iq8a377 b.122.1.1 (A:506-582) Archaeosine tRNA-guanine tra 4e-04
d2apoa185 b.122.1.1 (A:247-331) Pseudouridine synthase II Tr 5e-04
d1q7ha185 b.122.1.1 (A:69-153) Hypothetical protein Ta1423, 0.001
>d1sqwa2 d.17.6.3 (A:1-94) Nip7p homolog, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 94 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: Pre-PUA domain
family: Nip7p homolog, N-terminal domain
domain: Nip7p homolog, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  160 bits (406), Expect = 3e-52
 Identities = 53/102 (51%), Positives = 66/102 (64%), Gaps = 8/102 (7%)

Query: 1   MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLV 60
           MRPL E ET  +FEK+ K+ G NL+ +V+ P         G YCFRLH +RVYYVSE ++
Sbjct: 1   MRPLTEEETRVMFEKIAKYIGENLQLLVDRPD--------GTYCFRLHNDRVYYVSEKIM 52

Query: 61  KRATNIARPKLVSLGTCIGKFTHGGKFHLTIQALSLVAANAR 102
           K A NI+  KLVSLGTC GKFT   KF L + AL  +A  A+
Sbjct: 53  KLAANISGDKLVSLGTCFGKFTKTHKFRLHVTALDYLAPYAK 94
>d1sqwa1 b.122.1.1 (A:95-170) Nip7p homolog, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 76 Back     information, alignment and structure
>d1r3ea1 b.122.1.1 (A:238-318) Pseudouridine synthase II TruB, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 81 Back     information, alignment and structure
>d2ey4a1 b.122.1.1 (A:253-336) Pseudouridine synthase II TruB, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 84 Back     information, alignment and structure
>d1iq8a3 b.122.1.1 (A:506-582) Archaeosine tRNA-guanine transglycosylase, C3 domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 77 Back     information, alignment and structure
>d2apoa1 b.122.1.1 (A:247-331) Pseudouridine synthase II TruB, C-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 85 Back     information, alignment and structure
>d1q7ha1 b.122.1.1 (A:69-153) Hypothetical protein Ta1423, C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 85 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 ?
Query187
d1sqwa294 Nip7p homolog, N-terminal domain {Human (Homo sapi 100.0
d1sqwa176 Nip7p homolog, C-terminal domain {Human (Homo sapi 100.0
d1iq8a377 Archaeosine tRNA-guanine transglycosylase, C3 doma 98.64
d2ey4a184 Pseudouridine synthase II TruB, C-terminal domain 98.55
d2apoa185 Pseudouridine synthase II TruB, C-terminal domain 98.48
d1q7ha185 Hypothetical protein Ta1423, C-terminal domain {Ar 98.29
d1r3ea181 Pseudouridine synthase II TruB, C-terminal domain 98.03
d2q07a168 Uncharacterized protein AF0587 {Archaeoglobus fulg 97.03
d2cx1a193 Hypothetical protein APE0525, C-terminal domain {A 96.97
d2as0a172 Hypothetical protein PH1915, N-terminal domain {Ar 96.52
d1wxxa164 Hypothetical protein TTHA1280, N-terminal domain { 80.84
>d1sqwa2 d.17.6.3 (A:1-94) Nip7p homolog, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Cystatin-like
superfamily: Pre-PUA domain
family: Nip7p homolog, N-terminal domain
domain: Nip7p homolog, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.3e-53  Score=315.19  Aligned_cols=94  Identities=56%  Similarity=0.961  Sum_probs=93.0

Q ss_pred             CCCCCHHHHHHHHHHHhhhhcccccccccCCCCCCCCCCCCceEEEeeCceEEEEcHHHHHhhccCCCCCeeeeeeeEEE
Q 029802            1 MRPLDEAETTAVFEKLFKFTGNNLKNIVENPSHEGPDPNPGRYCFRLHKNRVYYVSESLVKRATNIARPKLVSLGTCIGK   80 (187)
Q Consensus         1 MR~LteeE~~~vf~KL~kyiG~nl~~li~~~~~~~~~~~d~~y~frl~k~rVyyvs~~l~~~a~~i~r~~L~S~Gtc~Gk   80 (187)
                      ||||||||+++||+||++|||+|++.||+++        ||+||||||++||||||++|+++|++|+|++|+|+||||||
T Consensus         1 MRpLteeEtk~vfeKLa~yiG~Ni~~li~~~--------d~~y~FRLhk~RVyYvse~i~k~A~~i~r~~L~s~Gtc~GK   72 (94)
T d1sqwa2           1 MRPLTEEETRVMFEKIAKYIGENLQLLVDRP--------DGTYCFRLHNDRVYYVSEKIMKLAANISGDKLVSLGTCFGK   72 (94)
T ss_dssp             CEECCHHHHHHHHHHHHHHHGGGTHHHHEET--------TEEEEEEEETTEEEEEEHHHHHTTTSSCHHHHHHHSEEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHHhhhHHHHhcCC--------CCCEEEEEeCCEEEEEhHHHHHHhhcCChhheeEeeeEEEE
Confidence            9999999999999999999999999999998        89999999999999999999999999999999999999999


Q ss_pred             eeecceEEEEeeehHhHhhccc
Q 029802           81 FTHGGKFHLTIQALSLVAANAR  102 (187)
Q Consensus        81 FtKs~kFrl~itaL~~La~~a~  102 (187)
                      ||||||||||||||++|||||+
T Consensus        73 FTKtgkFrL~ITaL~~La~yAk   94 (94)
T d1sqwa2          73 FTKTHKFRLHVTALDYLAPYAK   94 (94)
T ss_dssp             ECTTSCEEECGGGHHHHGGGCS
T ss_pred             EecCCeEEEEEEehHhhhhhcC
Confidence            9999999999999999999996
>d1sqwa1 b.122.1.1 (A:95-170) Nip7p homolog, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1iq8a3 b.122.1.1 (A:506-582) Archaeosine tRNA-guanine transglycosylase, C3 domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d2ey4a1 b.122.1.1 (A:253-336) Pseudouridine synthase II TruB, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d2apoa1 b.122.1.1 (A:247-331) Pseudouridine synthase II TruB, C-terminal domain {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1q7ha1 b.122.1.1 (A:69-153) Hypothetical protein Ta1423, C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Back     information, alignment and structure
>d1r3ea1 b.122.1.1 (A:238-318) Pseudouridine synthase II TruB, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure
>d2q07a1 b.122.1.1 (A:460-527) Uncharacterized protein AF0587 {Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d2cx1a1 b.122.1.1 (A:91-183) Hypothetical protein APE0525, C-terminal domain {Archaeon Aeropyrum pernix [TaxId: 56636]} Back     information, alignment and structure
>d2as0a1 b.122.1.9 (A:1-72) Hypothetical protein PH1915, N-terminal domain {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1wxxa1 b.122.1.9 (A:1-64) Hypothetical protein TTHA1280, N-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure