Psyllid ID: psy13908

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-------15
MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEGS
ccccccccccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHcccccHHHHHHHHHHHcHHHHHHHHHcccEEEcccccccccccc
cHHHHHHHHHHHHHHcccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHcccccccccHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEcccHHHHHHccc
MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGiqkrqdyttYNKLSRLIRTLAQKikdldpkdpfrvESSAKLLEKLYLMGLIRtkwdlencnkvtassfckrrlpvvMYRNKMVQQLRLATQFIEQAHVrvgpelegdmiegs
mvrklkyheqkllkkvdfisweadnNLHEVKIMrrfgiqkrqdyttynKLSRLIRTLAqkikdldpkdpfrveSSAKLLEKLYLMGLirtkwdlencnkvtassfckrrlpvVMYRNKMVQQLRLATQFIEQAHVrvgpelegdmiegs
MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEGS
******YHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRV************
**RKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGD*****
MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEGS
*VRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE**
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEGS
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 ?
Query149 2.2.26 [Sep-21-2011]
Q3T0M3184 U3 small nucleolar ribonu yes N/A 0.966 0.782 0.579 1e-46
Q921Y2184 U3 small nucleolar ribonu yes N/A 0.966 0.782 0.565 1e-46
Q9NV31184 U3 small nucleolar ribonu yes N/A 0.966 0.782 0.572 5e-46
P32899183 U3 small nucleolar ribonu yes N/A 0.966 0.786 0.524 4e-37
O01513183 Putative 40S ribosomal pr yes N/A 0.966 0.786 0.458 1e-31
O13835183 U3 small nucleolar ribonu yes N/A 0.959 0.781 0.468 2e-31
Q01688169 Putative 37S ribosomal pr N/A N/A 0.959 0.846 0.448 1e-28
Q9FLF0197 40S ribosomal protein S9- no N/A 0.751 0.568 0.313 5e-07
P14132185 40S ribosomal protein S9 no N/A 0.758 0.610 0.271 2e-06
Q9LXG1198 40S ribosomal protein S9- no N/A 0.751 0.565 0.295 3e-06
>sp|Q3T0M3|IMP3_BOVIN U3 small nucleolar ribonucleoprotein protein IMP3 OS=Bos taurus GN=IMP3 PE=2 SV=1 Back     alignment and function desciption
 Score =  184 bits (468), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 84/145 (57%), Positives = 117/145 (80%), Gaps = 1/145 (0%)

Query: 1   MVRKLKYHEQKLLKKVDFISWE-ADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQ 59
           MVRKLK+HEQKLLK+VDF++WE  D+NLHE++++RR+ +Q+R+DYT YN+LSR +R LA+
Sbjct: 1   MVRKLKFHEQKLLKQVDFLNWEVTDHNLHELRVLRRYRLQRREDYTRYNQLSRAVRELAR 60

Query: 60  KIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKM 119
           +++DL  +DPFRV SSA LL+KLY +GL+ T+   E C+ VTASSFC+RRLP V+ + +M
Sbjct: 61  RLRDLPERDPFRVRSSAALLDKLYALGLVPTRGSQELCDFVTASSFCRRRLPTVLLKLRM 120

Query: 120 VQQLRLATQFIEQAHVRVGPELEGD 144
            Q L+ A  F+EQ HVRVGP++  D
Sbjct: 121 AQHLQAAVAFVEQGHVRVGPDVVTD 145
Component of the 60-80S U3 small nucleolar ribonucleoprotein (U3 snoRNP). Required for the early cleavages during pre-18S ribosomal RNA processing.
Bos taurus (taxid: 9913)
>sp|Q921Y2|IMP3_MOUSE U3 small nucleolar ribonucleoprotein protein IMP3 OS=Mus musculus GN=Imp3 PE=2 SV=1 Back     alignment and function description
>sp|Q9NV31|IMP3_HUMAN U3 small nucleolar ribonucleoprotein protein IMP3 OS=Homo sapiens GN=IMP3 PE=1 SV=1 Back     alignment and function description
>sp|P32899|IMP3_YEAST U3 small nucleolar ribonucleoprotein protein IMP3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=IMP3 PE=1 SV=1 Back     alignment and function description
>sp|O01513|YS4L_CAEEL Putative 40S ribosomal protein S4-like OS=Caenorhabditis elegans GN=C48B6.2 PE=3 SV=1 Back     alignment and function description
>sp|O13835|IMP3_SCHPO U3 small nucleolar ribonucleoprotein protein imp3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=imp3 PE=3 SV=1 Back     alignment and function description
>sp|Q01688|YS4L_PNECA Putative 37S ribosomal protein S4-like (Fragment) OS=Pneumocystis carinii GN=RBP PE=3 SV=1 Back     alignment and function description
>sp|Q9FLF0|RS92_ARATH 40S ribosomal protein S9-2 OS=Arabidopsis thaliana GN=RPS9C PE=2 SV=1 Back     alignment and function description
>sp|P14132|RS9_DICDI 40S ribosomal protein S9 OS=Dictyostelium discoideum GN=rps9 PE=1 SV=1 Back     alignment and function description
>sp|Q9LXG1|RS91_ARATH 40S ribosomal protein S9-1 OS=Arabidopsis thaliana GN=RPS9B PE=1 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 ?
Query149
156537005181 PREDICTED: U3 small nucleolar ribonucleo 0.966 0.795 0.729 7e-57
66561334182 PREDICTED: u3 small nucleolar ribonucleo 0.966 0.791 0.736 1e-56
380024339182 PREDICTED: U3 small nucleolar ribonucleo 0.966 0.791 0.736 2e-56
383847993182 PREDICTED: U3 small nucleolar ribonucleo 0.966 0.791 0.743 6e-56
427781775182 Putative imp3 u3 small nucleolar ribonuc 0.966 0.791 0.687 5e-55
350423953195 PREDICTED: U3 small nucleolar ribonucleo 0.966 0.738 0.722 2e-54
242246934182 U3 small nucleolar ribonucleoprotein pro 0.966 0.791 0.722 3e-54
189241511181 PREDICTED: similar to U3 small nucleolar 0.966 0.795 0.708 4e-54
307181838182 U3 small nucleolar ribonucleoprotein pro 0.966 0.791 0.708 1e-53
322784413175 hypothetical protein SINV_13042 [Solenop 0.966 0.822 0.701 2e-53
>gi|156537005|ref|XP_001608295.1| PREDICTED: U3 small nucleolar ribonucleoprotein protein IMP3-like [Nasonia vitripennis] Back     alignment and taxonomy information
 Score =  224 bits (572), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 105/144 (72%), Positives = 123/144 (85%)

Query: 1   MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQK 60
           MVRKLKYHEQKLLKKVDFISWEADNNLHEVK+++R+ IQKR+DYT YNKLSR IR L +K
Sbjct: 1   MVRKLKYHEQKLLKKVDFISWEADNNLHEVKVLKRYQIQKREDYTKYNKLSREIRELGRK 60

Query: 61  IKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMV 120
           IK+LD  +PFR E SA LLEKLY++G+I TKWDL  C KVTASSFC+RRLPVVM R+KM 
Sbjct: 61  IKELDADNPFRAEQSAALLEKLYMLGIIPTKWDLSLCQKVTASSFCRRRLPVVMVRSKMS 120

Query: 121 QQLRLATQFIEQAHVRVGPELEGD 144
           + +++ATQ IEQ HVRVGPE+  D
Sbjct: 121 ESIKMATQLIEQGHVRVGPEIIKD 144

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|66561334|ref|XP_623809.1| PREDICTED: u3 small nucleolar ribonucleoprotein protein IMP3-like [Apis mellifera] Back     alignment and taxonomy information
>gi|380024339|ref|XP_003695958.1| PREDICTED: U3 small nucleolar ribonucleoprotein protein IMP3-like [Apis florea] Back     alignment and taxonomy information
>gi|383847993|ref|XP_003699637.1| PREDICTED: U3 small nucleolar ribonucleoprotein protein IMP3-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|427781775|gb|JAA56339.1| Putative imp3 u3 small nucleolar ribonucleoprotein log [Rhipicephalus pulchellus] Back     alignment and taxonomy information
>gi|350423953|ref|XP_003493643.1| PREDICTED: U3 small nucleolar ribonucleoprotein protein IMP3-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|242246934|ref|NP_001156082.1| U3 small nucleolar ribonucleoprotein protein IMP3-like [Acyrthosiphon pisum] gi|239790692|dbj|BAH71892.1| ACYPI001508 [Acyrthosiphon pisum] Back     alignment and taxonomy information
>gi|189241511|ref|XP_967615.2| PREDICTED: similar to U3 small nucleolar ribonucleoprotein protein IMP3 [Tribolium castaneum] gi|270001198|gb|EEZ97645.1| hypothetical protein TcasGA2_TC016093 [Tribolium castaneum] Back     alignment and taxonomy information
>gi|307181838|gb|EFN69278.1| U3 small nucleolar ribonucleoprotein protein IMP3 [Camponotus floridanus] Back     alignment and taxonomy information
>gi|322784413|gb|EFZ11384.1| hypothetical protein SINV_13042 [Solenopsis invicta] 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 ?
Query149
ZFIN|ZDB-GENE-040426-1062183 imp3 "IMP3, U3 small nucleolar 0.966 0.786 0.652 5.4e-47
UNIPROTKB|F1MZR5184 IMP3 "U3 small nucleolar ribon 0.966 0.782 0.586 1.5e-44
UNIPROTKB|F1SJ73184 IMP3 "Uncharacterized protein" 0.966 0.782 0.579 3.1e-44
RGD|1306825184 Imp3 "IMP3, U3 small nucleolar 0.966 0.782 0.565 3.1e-44
UNIPROTKB|E2RL19224 IMP3 "Uncharacterized protein" 0.966 0.642 0.572 5e-44
UNIPROTKB|Q3T0M3184 IMP3 "U3 small nucleolar ribon 0.966 0.782 0.579 6.4e-44
MGI|MGI:1916119184 Imp3 "IMP3, U3 small nucleolar 0.966 0.782 0.565 1e-43
UNIPROTKB|Q9NV31184 IMP3 "U3 small nucleolar ribon 0.966 0.782 0.572 2.2e-43
FB|FBgn0034232181 CG4866 [Drosophila melanogaste 0.966 0.795 0.576 4.2e-40
SGD|S000001191183 IMP3 "Component of the SSU pro 0.966 0.786 0.524 7.2e-36
ZFIN|ZDB-GENE-040426-1062 imp3 "IMP3, U3 small nucleolar ribonucleoprotein, homolog (yeast)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
 Score = 492 (178.3 bits), Expect = 5.4e-47, P = 5.4e-47
 Identities = 94/144 (65%), Positives = 117/144 (81%)

Query:     1 MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQK 60
             MVRKLK+HEQKLLKKVDFI+WE DNN+HEVK++R++ I+KR+DYT YNKLSR IR LAQK
Sbjct:     1 MVRKLKFHEQKLLKKVDFINWEVDNNIHEVKVLRKYHIEKREDYTKYNKLSRNIRELAQK 60

Query:    61 IKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMV 120
             I+DLD KD FR +S+A  LEKLY +GLI TK +L   N+V+AS+FC+RRLP +M + +M 
Sbjct:    61 IRDLDAKDGFRSQSTALFLEKLYSVGLIPTKQNLSLANEVSASAFCRRRLPTIMLKLRMA 120

Query:   121 QQLRLATQFIEQAHVRVGPELEGD 144
             Q LR A  FIEQ H+RVGPE+  D
Sbjct:   121 QNLRNAITFIEQGHIRVGPEVITD 144
GO:0003723 "RNA binding" evidence=IEA
UNIPROTKB|F1MZR5 IMP3 "U3 small nucleolar ribonucleoprotein protein IMP3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SJ73 IMP3 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1306825 Imp3 "IMP3, U3 small nucleolar ribonucleoprotein, homolog (yeast)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E2RL19 IMP3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|Q3T0M3 IMP3 "U3 small nucleolar ribonucleoprotein protein IMP3" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:1916119 Imp3 "IMP3, U3 small nucleolar ribonucleoprotein, homolog (yeast)" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q9NV31 IMP3 "U3 small nucleolar ribonucleoprotein protein IMP3" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
FB|FBgn0034232 CG4866 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
SGD|S000001191 IMP3 "Component of the SSU processome" [Saccharomyces cerevisiae (taxid:4932)] 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) ?
Q921Y2IMP3_MOUSENo assigned EC number0.56550.96640.7826yesN/A
Q3T0M3IMP3_BOVINNo assigned EC number0.57930.96640.7826yesN/A
O13835IMP3_SCHPONo assigned EC number0.46890.95970.7814yesN/A
Q9NV31IMP3_HUMANNo assigned EC number0.57240.96640.7826yesN/A
O01513YS4L_CAEELNo assigned EC number0.45830.96640.7868yesN/A
P32899IMP3_YEASTNo assigned EC number0.52410.96640.7868yesN/A

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query149
COG0522205 COG0522, RpsD, Ribosomal protein S4 and related pr 9e-13
PLN00189194 PLN00189, PLN00189, 40S ribosomal protein S9; Prov 3e-09
PTZ00155181 PTZ00155, PTZ00155, 40S ribosomal protein S9; Prov 2e-07
TIGR01018162 TIGR01018, rpsD_arch, ribosomal protein S4(archaea 2e-06
PRK04051177 PRK04051, rps4p, 30S ribosomal protein S4P; Valida 0.002
>gnl|CDD|223596 COG0522, RpsD, Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information 
 Score = 62.3 bits (152), Expect = 9e-13
 Identities = 29/141 (20%), Positives = 50/141 (35%), Gaps = 18/141 (12%)

Query: 1   MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLS--RLIRTLA 58
           M R     ++KL +++ F  W  +    E K+  + G         + KLS   L     
Sbjct: 1   MARYPG-PKKKLSRRLGFNPWLKERLCKERKLPYKPGQHG---QERWKKLSDYGLQLREK 56

Query: 59  QKIKDLDPKDPFRVESSAKLLEKLYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNK 118
           QK++       F      +    L   G ++          +   +  +RRL  V+YR  
Sbjct: 57  QKLR------AFYGVLEKQFRRYLKEAGRLKGV------TGLNLLALLERRLDNVVYRLG 104

Query: 119 MVQQLRLATQFIEQAHVRVGP 139
             +  R A Q +   H+ V  
Sbjct: 105 FAKTRRQARQLVSHGHILVNG 125

Length = 205
>gnl|CDD|177783 PLN00189, PLN00189, 40S ribosomal protein S9; Provisional Back     alignment and domain information
>gnl|CDD|185484 PTZ00155, PTZ00155, 40S ribosomal protein S9; Provisional Back     alignment and domain information
>gnl|CDD|213577 TIGR01018, rpsD_arch, ribosomal protein S4(archaeal type)/S9(eukaryote cytosolic type) Back     alignment and domain information
>gnl|CDD|179730 PRK04051, rps4p, 30S ribosomal protein S4P; Validated Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 149
KOG4655|consensus181 100.0
TIGR01018162 rpsD_arch ribosomal protein S4(archaeal type)/S9(e 100.0
PLN00189194 40S ribosomal protein S9; Provisional 100.0
PTZ00155181 40S ribosomal protein S9; Provisional 100.0
PRK04051177 rps4p 30S ribosomal protein S4P; Validated 100.0
KOG3301|consensus183 100.0
COG0522205 RpsD Ribosomal protein S4 and related proteins [Tr 100.0
PF0147948 S4: S4 domain; InterPro: IPR002942 Ribosomes are t 99.16
CHL00113201 rps4 ribosomal protein S4; Reviewed 99.05
TIGR01017200 rpsD_bact ribosomal protein S4, bacterial/organell 98.96
PRK05327203 rpsD 30S ribosomal protein S4; Validated 98.93
PF0016394 Ribosomal_S4: Ribosomal protein S4/S9 N-terminal d 98.75
cd0016570 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The 97.98
TIGR0298859 YaaA_near_RecF S4 domain protein YaaA. This small 97.9
PRK10348133 ribosome-associated heat shock protein Hsp15; Prov 97.89
smart0036360 S4 S4 RNA-binding domain. 97.84
COG1188100 Ribosome-associated heat shock protein implicated 97.04
TIGR03069257 PS_II_S4 photosystem II S4 domain protein. Members 96.94
COG2302257 Uncharacterized conserved protein, contains S4-lik 96.77
PLN00051267 RNA-binding S4 domain-containing protein; Provisio 96.47
PRK13354410 tyrosyl-tRNA synthetase; Provisional 95.64
PRK04313 237 30S ribosomal protein S4e; Validated 95.25
PRK05912408 tyrosyl-tRNA synthetase; Validated 95.14
PTZ00118 262 40S ribosomal protein S4; Provisional 94.86
PLN00036 261 40S ribosomal protein S4; Provisional 94.83
PTZ00223 273 40S ribosomal protein S4; Provisional 94.58
COG0162401 TyrS Tyrosyl-tRNA synthetase [Translation, ribosom 94.54
PRK11180 325 rluD 23S rRNA pseudouridine synthase D; Provisiona 94.26
PRK1150770 ribosome-associated protein; Provisional 93.97
COG1471 241 RPS4A Ribosomal protein S4E [Translation, ribosoma 92.88
PF1327565 S4_2: S4 domain; PDB: 1P9K_A. 91.78
COG0564 289 RluA Pseudouridylate synthases, 23S RNA-specific [ 88.87
PRK11025 317 23S rRNA pseudouridylate synthase C; Provisional 87.02
TIGR00234377 tyrS tyrosyl-tRNA synthetase. This tyrosyl-tRNA sy 86.4
COG250173 S4-like RNA binding protein [Replication, recombin 86.05
KOG2623|consensus467 84.32
>KOG4655|consensus Back     alignment and domain information 
Probab=100.00  E-value=3.2e-57  Score=354.46  Aligned_cols=146  Identities=52%  Similarity=0.864  Sum_probs=145.0

Q ss_pred             cccchhhhhhhcccCCCCcccccccHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHH
Q psy13908          2 VRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEK   81 (149)
Q Consensus         2 ~r~lk~he~kLlkkv~f~~w~~~~~~~E~~l~~~YgLkkrE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~k   81 (149)
                      |||||||||||||||||.+|+.+.+.+|..++++|||++||+|.+||.+|+++|++|+.|..|++.||||...+..||+|
T Consensus         1 vRKLK~HEQKLLKkVdFLnWkv~d~~re~~v~rrY~l~~REdY~kyn~l~~~~r~la~~l~~l~~sDpfR~~~t~~LL~k   80 (181)
T KOG4655|consen    1 VRKLKFHEQKLLKKVDFLNWKVTDHHRELCVLRRYHLKKREDYTKYNRLAGKVRKLANRLALLDESDPFRLQYTLLLLEK   80 (181)
T ss_pred             CchhhHHHHHHHHhcccceeeecCchhhHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHHHHHhhcc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcccCCcccccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCC
Q psy13908         82 LYLMGLIRTKWDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIE  147 (149)
Q Consensus        82 L~~~Gll~~~~~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~  147 (149)
                      ||.||++++.++++++.++|+++||+|||++|+.+++||+|+++|..||+||||+||+++|++|||
T Consensus        81 ly~~GvipTr~~l~~~~kvtvssfCrRRLP~Vm~~l~m~~~~k~A~~~vEqGHVRvGp~~vtDPa~  146 (181)
T KOG4655|consen   81 LYAMGVIPTRKSLELTEKVTVSSFCRRRLPVVMGRLRMAESVKEAVRFVEQGHVRVGPKVVTDPAF  146 (181)
T ss_pred             ccccceecchhhhhhcccchhHHHhhhccceeeeechhhhhHHHHHHHHHcCceeeCCeeccCchH
Confidence            999999999999999999999999999999999999999999999999999999999999999998

>TIGR01018 rpsD_arch ribosomal protein S4(archaeal type)/S9(eukaryote cytosolic type) Back     alignment and domain information
>PLN00189 40S ribosomal protein S9; Provisional Back     alignment and domain information
>PTZ00155 40S ribosomal protein S9; Provisional Back     alignment and domain information
>PRK04051 rps4p 30S ribosomal protein S4P; Validated Back     alignment and domain information
>KOG3301|consensus Back     alignment and domain information
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>CHL00113 rps4 ribosomal protein S4; Reviewed Back     alignment and domain information
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type Back     alignment and domain information
>PRK05327 rpsD 30S ribosomal protein S4; Validated Back     alignment and domain information
>PF00163 Ribosomal_S4: Ribosomal protein S4/S9 N-terminal domain; InterPro: IPR001912 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms Back     alignment and domain information
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes Back     alignment and domain information
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA Back     alignment and domain information
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional Back     alignment and domain information
>smart00363 S4 S4 RNA-binding domain Back     alignment and domain information
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>TIGR03069 PS_II_S4 photosystem II S4 domain protein Back     alignment and domain information
>COG2302 Uncharacterized conserved protein, contains S4-like domain [Function unknown] Back     alignment and domain information
>PLN00051 RNA-binding S4 domain-containing protein; Provisional Back     alignment and domain information
>PRK13354 tyrosyl-tRNA synthetase; Provisional Back     alignment and domain information
>PRK04313 30S ribosomal protein S4e; Validated Back     alignment and domain information
>PRK05912 tyrosyl-tRNA synthetase; Validated Back     alignment and domain information
>PTZ00118 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PLN00036 40S ribosomal protein S4; Provisional Back     alignment and domain information
>PTZ00223 40S ribosomal protein S4; Provisional Back     alignment and domain information
>COG0162 TyrS Tyrosyl-tRNA synthetase [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional Back     alignment and domain information
>PRK11507 ribosome-associated protein; Provisional Back     alignment and domain information
>COG1471 RPS4A Ribosomal protein S4E [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PF13275 S4_2: S4 domain; PDB: 1P9K_A Back     alignment and domain information
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis] Back     alignment and domain information
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional Back     alignment and domain information
>TIGR00234 tyrS tyrosyl-tRNA synthetase Back     alignment and domain information
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair] Back     alignment and domain information
>KOG2623|consensus 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 ?
Query149
2cqj_A71 Solution Structure Of The S4 Domain Of U3 Small Nuc 2e-06
3iz6_C195 Localization Of The Small Subunit Ribosomal Protein 5e-06
2xzm_D181 Crystal Structure Of The Eukaryotic 40s Ribosomal S 3e-05
1s1h_D179 Structure Of The Ribosomal 80s-Eef2-Sordarin Comple 5e-04
3jyv_D158 Structure Of The 40s Rrna And Proteins And PE TRNA 7e-04
>pdb|2CQJ|A Chain A, Solution Structure Of The S4 Domain Of U3 Small Nucleolar Ribonucleoprotein Protein Imp3 Homolog Length = 71 Back     alignment and structure 
Iteration: 1

 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 102 ASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGD 144
           +S    RRLP V+ + +M Q L+ A  F+EQ HVRVGP++  D
Sbjct: 2   SSGSSGRRLPTVLLKLRMAQHLQAAVAFVEQGHVRVGPDVVTD 44
>pdb|3IZ6|C Chain C, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 195 Back     alignment and structure
>pdb|2XZM|D Chain D, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 181 Back     alignment and structure
>pdb|1S1H|D Chain D, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i Length = 179 Back     alignment and structure
>pdb|3JYV|D Chain D, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 158 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 ?
Query149
3iz6_C195 40S ribosomal protein S9 (S4P); eukaryotic ribosom 2e-38
3u5c_J197 40S ribosomal protein S9-A; translation, ribosome, 2e-27
2xzm_D181 Ribosomal protein S4 containing protein; ribosome, 9e-27
2cqj_A71 BRMS2, U3 small nucleolar ribonucleoprotein protei 2e-15
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 195 Back     alignment and structure
 Score =  127 bits (321), Expect = 2e-38
 Identities = 33/142 (23%), Positives = 67/142 (47%), Gaps = 1/142 (0%)

Query: 1   MVRKLKYHEQKLLKKVDFISWEADNNLHEVKIMRRFGIQKRQDYTTYNKLSRLIRTLAQK 60
           M R  + + +    K     +E +    E+K++  +G++ +++          IR  A+ 
Sbjct: 1   MPRAPRTYSKTYSTKKPRRPYEKERLDAELKLVGEYGLRCKRELWRVQYALSRIRNNARH 60

Query: 61  IKDLDPKDPFRVESSAKLLEKLYLMGLIRT-KWDLENCNKVTASSFCKRRLPVVMYRNKM 119
           +  LD K+P R+     LL ++   GL+   +  L+    +T  +F  RRL  ++++  M
Sbjct: 61  LLTLDEKNPRRIFEGEALLRRMNRYGLLADGQNKLDYVLALTVENFLARRLQTLVFKAGM 120

Query: 120 VQQLRLATQFIEQAHVRVGPEL 141
            + +  A   I Q H+RVG ++
Sbjct: 121 AKSIHHARVLIRQRHIRVGRQI 142
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D* Length = 197 Back     alignment and structure
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D Length = 181 Back     alignment and structure
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 71 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query149
3u5c_J197 40S ribosomal protein S9-A; translation, ribosome, 100.0
3j20_D180 30S ribosomal protein S4P; archaea, archaeal, KINK 100.0
3iz6_C195 40S ribosomal protein S9 (S4P); eukaryotic ribosom 100.0
2xzm_D181 Ribosomal protein S4 containing protein; ribosome, 100.0
2cqj_A71 BRMS2, U3 small nucleolar ribonucleoprotein protei 99.68
3bbn_D201 Ribosomal protein S4; small ribosomal subunit, spi 99.46
1c05_A159 Ribosomal protein S4 delta 41; two subdomains, uni 99.28
3r8n_D205 30S ribosomal protein S4; protein biosynthesis, RN 99.05
2vqe_D209 30S ribosomal protein S4; tRNA-binding, rRNA-bindi 99.02
1p9k_A79 ORF, hypothetical protein; alfal motif, RNA-bindin 98.06
3kbg_A 213 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR2 97.93
3j20_E 243 30S ribosomal protein S4E; archaea, archaeal, KINK 97.92
2k6p_A92 Uncharacterized protein HP_1423; alpha-L motif, RN 97.47
1dm9_A133 Hypothetical 15.5 KD protein in MRCA-PCKA intergen 97.44
2jan_A432 Tyrosyl-tRNA synthetase; protein biosynthesis, ami 95.6
1v9f_A 325 Ribosomal large subunit pseudouridine synthase D; 95.58
1h3f_A432 Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA sy 95.58
1jil_A420 Tyrrs, tyrosyl-tRNA synthetase; truncation, based 95.32
2ts1_A419 Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30 94.81
2ktl_A164 Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA s 94.55
3u5c_E 261 RP5, S7, YS6, 40S ribosomal protein S4-A; translat 94.32
3iz6_D 265 40S ribosomal protein S4 (S4E); eukaryotic ribosom 93.7
2xzm_W 260 40S ribosomal protein S4; ribosome, translation; 3 93.18
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D* Back     alignment and structure
Probab=100.00  E-value=2.5e-47  Score=305.61  Aligned_cols=134  Identities=23%  Similarity=0.317  Sum_probs=129.2

Q ss_pred             ccCCCCcccccccHHHHHHHHHhcCC-CchHHHHHHHHHHHHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHhcccCC-c
Q psy13908         14 KKVDFISWEADNNLHEVKIMRRFGIQ-KRQDYTTYNKLSRLIRTLAQKIKDLDPKDPFRVESSAKLLEKLYLMGLIRT-K   91 (149)
Q Consensus        14 kkv~f~~w~~~~~~~E~~l~~~YgLk-krE~~~~y~~l~~~irk~Ar~L~~l~~~dp~r~~~~~~LL~kL~~~Gll~~-~   91 (149)
                      -.+|.+||+++++.+|+++|++|||+ |||.|+ |+++|++||++|+.|++||++||||++++.+||+|||+||||++ +
T Consensus        12 ~~tP~~p~~~~r~~~E~~l~~~YgL~nKrE~wr-~~~~l~~iR~~Ar~Ll~l~~~dp~r~~~~~~LL~kL~~~Gil~~~~   90 (197)
T 3u5c_J           12 YSTPKRPYESSRLDAELKLAGEFGLKNKKEIYR-ISFQLSKIRRAARDLLTRDEKDPKRLFEGNALIRRLVRVGVLSEDK   90 (197)
T ss_dssp             CCCCSSSCCHHHHHHHHHHHHHHTCSCHHHHHH-HHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTSSCGGG
T ss_pred             cCCCCCchhHHhhHHHHHHHHHhCCCCHHHHHH-HHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHHcCCCCCcc
Confidence            36999999999999999999999999 888899 78888899999999999999999999999999999999999975 7


Q ss_pred             ccccccccchhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908         92 WDLENCNKVTASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG  148 (149)
Q Consensus        92 ~~L~~vl~l~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~  148 (149)
                      .+|++|+++|+++|||+|||++||++|||+|+.+|+|||.||||+|||++|++|||-
T Consensus        91 ~~L~~v~~l~~~~~le~RLD~~L~r~G~a~Sr~~ArqLI~~GhV~VNG~~V~~Ps~~  147 (197)
T 3u5c_J           91 KKLDYVLALKVEDFLERRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIPSFM  147 (197)
T ss_dssp             CSSHHHHHCCHHHHHTTSHHHHHHHSSTTSSHHHHHHHHHTSCCBSSSCBCCCTTCC
T ss_pred             cChhhhhcccHHHHHHHHHHHHHHHccccCCHHHHHHHHHcCCEEECCEEeCCCccc
Confidence            899999999999999999999999999999999999999999999999999999984
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D Back     alignment and structure
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens} Back     alignment and structure
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Back     alignment and structure
>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C Back     alignment and structure
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D* 1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D* 1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G 2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ... Back     alignment and structure
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6 Back     alignment and structure
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum} Back     alignment and structure
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} Back     alignment and structure
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori} Back     alignment and structure
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A Back     alignment and structure
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis} Back     alignment and structure
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A Back     alignment and structure
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A* Back     alignment and structure
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A* Back     alignment and structure
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E* 1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A Back     alignment and structure
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4} Back     alignment and structure
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E Back     alignment and structure
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Back     alignment and structure
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query149
d1c06a_159 Ribosomal protein S4 {Bacillus stearothermophilus 99.72
d2gy9d1204 Ribosomal protein S4 {Escherichia coli [TaxId: 562 99.7
d2uubd1208 Ribosomal protein S4 {Thermus thermophilus [TaxId: 99.67
d1dm9a_104 Heat shock protein 15 kD {Escherichia coli [TaxId: 98.68
d1vioa258 Pseudouridine synthase RsuA N-terminal domain {Hae 98.65
d1kska359 Pseudouridine synthase RsuA N-terminal domain {Esc 98.64
d1p9ka_79 Hypothetical protein YbcJ {Escherichia coli [TaxId 98.43
d1h3fa281 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.82
d1jh3a_99 Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain 97.57
>d1c06a_ d.66.1.2 (A:) Ribosomal protein S4 {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Alpha-L RNA-binding motif
superfamily: Alpha-L RNA-binding motif
family: Ribosomal protein S4
domain: Ribosomal protein S4
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.72  E-value=4.7e-19  Score=135.80  Aligned_cols=48  Identities=19%  Similarity=0.173  Sum_probs=45.6

Q ss_pred             hhhhhhcccccceeeeccCCCChHHHHhhHhcCcEEECCeeeCCCCCC
Q psy13908        101 TASSFCKRRLPVVMYRNKMVQQLRLATQFIEQAHVRVGPELEGDMIEG  148 (149)
Q Consensus       101 ~~~~~lerRL~~vv~r~~~a~s~~~ArqlI~hGhV~V~~~~V~~Ps~~  148 (149)
                      ++.++||+|||++|||+|||.|+.+|||+|.||||.|||+.||+|||-
T Consensus        44 ~ll~llE~RlD~vv~r~gfa~t~~~arQ~v~Hghi~vNgk~v~iPSy~   91 (159)
T d1c06a_          44 NFMILLESRLDNLVYRLGLARTRRQARQLVTHGHILVDGSRVNIPSYR   91 (159)
T ss_dssp             HHHHHHHHCHHHHHHHHTSSSSHHHHHHHHHTSCEEETTEECCCSSCC
T ss_pred             hHHHHHHHHhhhhhccCcccCCHHHHHHHHHhcceEccceEEEeccee
Confidence            457899999999999999999999999999999999999999999984
>d2gy9d1 d.66.1.2 (D:2-205) Ribosomal protein S4 {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2uubd1 d.66.1.2 (D:2-209) Ribosomal protein S4 {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1dm9a_ d.66.1.3 (A:) Heat shock protein 15 kD {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1vioa2 d.66.1.5 (A:0-57) Pseudouridine synthase RsuA N-terminal domain {Haemophilus influenzae [TaxId: 727]} Back     information, alignment and structure
>d1kska3 d.66.1.5 (A:1-59) Pseudouridine synthase RsuA N-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1p9ka_ d.66.1.6 (A:) Hypothetical protein YbcJ {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1h3fa2 d.66.1.4 (A:352-432) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jh3a_ d.66.1.4 (A:) Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Back     information, alignment and structure