Citrus Sinensis ID: 045257

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-------
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD
cEEEEEccccEEEEEEEEEcccccEEEEccEEEEEccccccEEEEEEEEEEcccEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
EEEEEEcccEEEEEEEEEEcccccEEEEEEEEEEEEcccccccccEEEEEEccEEEEEEEEccccccccccccEccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIivgdlycdiplglyvirGENVVLIGeldlekeelpahmtcVSTAEIKRAQKAEKDATVLKGSMrkrmefldfd
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAeikraqkaekdatvlkgsmrkrmefldfd
KIlvllrdgrkllgllrSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD
*ILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVS*******************************
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVG*L*CDIPLGLYVIRGENVVLIGELDLEKEELP*****VST***********************MEFLDF*
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD
KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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oooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD
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 ?
Query107 2.2.26 [Sep-21-2011]
O15116133 U6 snRNA-associated Sm-li yes no 0.831 0.669 0.577 2e-20
Q5E9Z8133 U6 snRNA-associated Sm-li yes no 0.831 0.669 0.577 2e-20
Q8VC85133 U6 snRNA-associated Sm-li yes no 0.831 0.669 0.566 3e-20
Q54W83129 Probable U6 snRNA-associa yes no 0.775 0.643 0.530 1e-19
P87173140 U6 snRNA-associated Sm-li yes no 0.616 0.471 0.651 2e-19
P47017172 Sm-like protein LSm1 OS=S yes no 0.644 0.401 0.521 1e-15
Q1ZXD594 N-alpha-acetyltransferase no no 0.598 0.680 0.468 1e-08
O7448394 U6 snRNA-associated Sm-li no no 0.616 0.702 0.450 2e-08
Q5RCP396 N-alpha-acetyltransferase no no 0.616 0.687 0.388 6e-08
Q6ZWM496 N-alpha-acetyltransferase no no 0.616 0.687 0.388 6e-08
>sp|O15116|LSM1_HUMAN U6 snRNA-associated Sm-like protein LSm1 OS=Homo sapiens GN=LSM1 PE=1 SV=1 Back     alignment and function desciption
 Score = 97.8 bits (242), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/90 (57%), Positives = 62/90 (68%), Gaps = 1/90 (1%)

Query: 1   KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGE 60
           K LVLLRDGR L+G LRS DQFAN+VL    ERI VG  Y DIP G++V+RGENVVL+GE
Sbjct: 17  KHLVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGE 76

Query: 61  LDLEKEELPAHMTCVSTAEIKRAQKAEKDA 90
           +DLEKE     +  VS  EI   Q+ E+  
Sbjct: 77  IDLEKES-DTPLQQVSIEEILEEQRVEQQT 105
Plays a role in replication-dependent histone mRNA degradation. Binds specifically to the 3'-terminal U-tract of U6 snRNA.
Homo sapiens (taxid: 9606)
>sp|Q5E9Z8|LSM1_BOVIN U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus GN=LSM1 PE=2 SV=1 Back     alignment and function description
>sp|Q8VC85|LSM1_MOUSE U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus GN=Lsm1 PE=2 SV=1 Back     alignment and function description
>sp|Q54W83|LSM1_DICDI Probable U6 snRNA-associated Sm-like protein LSm1 OS=Dictyostelium discoideum GN=lsm1 PE=3 SV=1 Back     alignment and function description
>sp|P87173|LSM1_SCHPO U6 snRNA-associated Sm-like protein LSm1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lsm1 PE=3 SV=1 Back     alignment and function description
>sp|P47017|LSM1_YEAST Sm-like protein LSm1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LSM1 PE=1 SV=1 Back     alignment and function description
>sp|Q1ZXD5|NAA38_DICDI N-alpha-acetyltransferase 38, NatC auxiliary subunit OS=Dictyostelium discoideum GN=lsm8 PE=3 SV=1 Back     alignment and function description
>sp|O74483|LSM8_SCHPO U6 snRNA-associated Sm-like protein LSm8 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lsm8 PE=3 SV=1 Back     alignment and function description
>sp|Q5RCP3|NAA38_PONAB N-alpha-acetyltransferase 38, NatC auxiliary subunit OS=Pongo abelii GN=NAA38 PE=3 SV=3 Back     alignment and function description
>sp|Q6ZWM4|NAA38_MOUSE N-alpha-acetyltransferase 38, NatC auxiliary subunit OS=Mus musculus GN=Naa38 PE=3 SV=3 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 ?
Query107
323650499128 small nuclear ribonucleoprotein [Mangife 1.0 0.835 0.962 2e-51
255550399128 lsm1, putative [Ricinus communis] gi|223 1.0 0.835 0.915 4e-49
357450125128 U6 snRNA-associated Sm-like protein LSm1 1.0 0.835 0.878 2e-48
356560171121 PREDICTED: U6 snRNA-associated Sm-like p 1.0 0.884 0.878 6e-48
351721438128 uncharacterized protein LOC100306352 [Gl 1.0 0.835 0.878 7e-48
388508644128 unknown [Medicago truncatula] 1.0 0.835 0.869 7e-48
255583960128 lsm1, putative [Ricinus communis] gi|223 1.0 0.835 0.869 1e-47
225442069128 PREDICTED: U6 snRNA-associated Sm-like p 1.0 0.835 0.869 8e-47
359484235128 PREDICTED: U6 snRNA-associated Sm-like p 1.0 0.835 0.869 2e-46
224119520128 predicted protein [Populus trichocarpa] 1.0 0.835 0.859 7e-46
>gi|323650499|gb|ADX97330.1| small nuclear ribonucleoprotein [Mangifera indica] Back     alignment and taxonomy information
 Score =  206 bits (524), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 103/107 (96%), Positives = 103/107 (96%)

Query: 1   KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGE 60
           KILVLLRD RKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGE
Sbjct: 22  KILVLLRDNRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGE 81

Query: 61  LDLEKEELPAHMTCVSTAEIKRAQKAEKDATVLKGSMRKRMEFLDFD 107
           LDLEKEELP HMT VST EIKRAQKAEKDATVLKGSMRKRMEFLDFD
Sbjct: 82  LDLEKEELPPHMTHVSTEEIKRAQKAEKDATVLKGSMRKRMEFLDFD 128

Source: Mangifera indica

Species: Mangifera indica

Genus: Mangifera

Family: Anacardiaceae

Order: Sapindales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255550399|ref|XP_002516250.1| lsm1, putative [Ricinus communis] gi|223544736|gb|EEF46252.1| lsm1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|357450125|ref|XP_003595339.1| U6 snRNA-associated Sm-like protein LSm1 [Medicago truncatula] gi|355484387|gb|AES65590.1| U6 snRNA-associated Sm-like protein LSm1 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356560171|ref|XP_003548368.1| PREDICTED: U6 snRNA-associated Sm-like protein LSm1-like [Glycine max] Back     alignment and taxonomy information
>gi|351721438|ref|NP_001237465.1| uncharacterized protein LOC100306352 [Glycine max] gi|255628281|gb|ACU14485.1| unknown [Glycine max] Back     alignment and taxonomy information
>gi|388508644|gb|AFK42388.1| unknown [Medicago truncatula] Back     alignment and taxonomy information
>gi|255583960|ref|XP_002532727.1| lsm1, putative [Ricinus communis] gi|223527535|gb|EEF29658.1| lsm1, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|225442069|ref|XP_002271476.1| PREDICTED: U6 snRNA-associated Sm-like protein LSm1 [Vitis vinifera] gi|147803430|emb|CAN62239.1| hypothetical protein VITISV_033727 [Vitis vinifera] gi|297742980|emb|CBI35847.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359484235|ref|XP_003633086.1| PREDICTED: U6 snRNA-associated Sm-like protein LSm1-like [Vitis vinifera] gi|297738539|emb|CBI27784.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|224119520|ref|XP_002331181.1| predicted protein [Populus trichocarpa] gi|118489961|gb|ABK96777.1| unknown [Populus trichocarpa x Populus deltoides] gi|222873302|gb|EEF10433.1| predicted protein [Populus trichocarpa] 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 ?
Query107
TAIR|locus:2087522128 LSM1B "SM-like 1B" [Arabidopsi 0.841 0.703 0.811 5.1e-35
TAIR|locus:2011246128 LSM1A "SM-like 1A" [Arabidopsi 0.841 0.703 0.822 1.3e-34
UNIPROTKB|I3LCU8133 LSM1 "Uncharacterized protein" 0.663 0.533 0.554 3.8e-14
FB|FBgn0261067137 LSm1 [Drosophila melanogaster 0.654 0.510 0.547 7.9e-14
UNIPROTKB|Q5E9Z8133 LSM1 "U6 snRNA-associated Sm-l 0.738 0.593 0.518 7.9e-14
UNIPROTKB|E2R7S6133 LSM1 "Uncharacterized protein" 0.738 0.593 0.518 7.9e-14
UNIPROTKB|O15116133 LSM1 "U6 snRNA-associated Sm-l 0.738 0.593 0.518 7.9e-14
RGD|1304967133 Lsm1 "LSM1 homolog, U6 small n 0.663 0.533 0.540 1e-13
DICTYBASE|DDB_G0279837129 lsm1 "LSM (like-Sm) domain-con 0.785 0.651 0.440 2.1e-13
MGI|MGI:1914457133 Lsm1 "LSM1 homolog, U6 small n 0.644 0.518 0.541 2.1e-13
TAIR|locus:2087522 LSM1B "SM-like 1B" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 379 (138.5 bits), Expect = 5.1e-35, P = 5.1e-35
 Identities = 73/90 (81%), Positives = 81/90 (90%)

Query:    18 SFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVST 77
             SFDQFAN VLEGACER+IVG+ YCDIPLGLYVIRGENVVLIGELD E+EELP HM  VS 
Sbjct:    39 SFDQFANAVLEGACERVIVGEQYCDIPLGLYVIRGENVVLIGELDTEREELPPHMIRVSE 98

Query:    78 AEIKRAQKAEKDATVLKGSMRKRMEFLDFD 107
             AEIKRAQK E++A+ L+G+MRKRMEFLDFD
Sbjct:    99 AEIKRAQKVEREASELRGTMRKRMEFLDFD 128
GO:0005634 "nucleus" evidence=ISM;ISS
GO:0005732 "small nucleolar ribonucleoprotein complex" evidence=ISS
GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA
GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0016070 "RNA metabolic process" evidence=IGI
TAIR|locus:2011246 LSM1A "SM-like 1A" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|I3LCU8 LSM1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
FB|FBgn0261067 LSm1 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
UNIPROTKB|Q5E9Z8 LSM1 "U6 snRNA-associated Sm-like protein LSm1" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2R7S6 LSM1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|O15116 LSM1 "U6 snRNA-associated Sm-like protein LSm1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
RGD|1304967 Lsm1 "LSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0279837 lsm1 "LSM (like-Sm) domain-containing protein" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
MGI|MGI:1914457 Lsm1 "LSM1 homolog, U6 small nuclear RNA associated (S. cerevisiae)" [Mus musculus (taxid:10090)] 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) ?
O15116LSM1_HUMANNo assigned EC number0.57770.83170.6691yesno
Q8VC85LSM1_MOUSENo assigned EC number0.56660.83170.6691yesno
Q54W83LSM1_DICDINo assigned EC number0.53010.77570.6434yesno
Q5E9Z8LSM1_BOVINNo assigned EC number0.57770.83170.6691yesno

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:
GSVIVG00034053001
SubName- Full=Putative uncharacterized protein (Chromosome chr9 scaffold_7, whole genome shotgun sequence); (128 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00020489001
SubName- Full=Chromosome chr5 scaffold_2, whole genome shotgun sequence; (87 aa)
   •••• 0.874
GSVIVG00023663001
SubName- Full=Chromosome chr7 scaffold_31, whole genome shotgun sequence; (97 aa)
   •••• 0.845
GSVIVG00008837001
SubName- Full=Chromosome chr13 scaffold_210, whole genome shotgun sequence; (113 aa)
   •••• 0.830
GSVIVG00031776001
hypothetical protein LOC100253870 (172 aa)
   •••• 0.816
GSVIVG00017697001
SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (86 aa)
   •  • 0.449
GSVIVG00033465001
SubName- Full=Chromosome chr19 scaffold_66, whole genome shotgun sequence; (107 aa)
   •• • 0.403

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 ?
Query107
cd0172874 cd01728, LSm1, Like-Sm protein 1 1e-34
cd0172791 cd01727, LSm8, Like-Sm protein 8 3e-17
smart0065167 smart00651, Sm, snRNP Sm proteins 2e-15
pfam0142366 pfam01423, LSM, LSM domain 3e-15
COG195879 COG1958, LSM1, Small nuclear ribonucleoprotein (sn 5e-12
cd0173169 cd01731, archaeal_Sm1, archaeal Sm protein 1 9e-09
cd0171970 cd01719, Sm_G, Sm protein G 4e-08
cd0060063 cd00600, Sm_like, Sm and related proteins 2e-06
PRK0073772 PRK00737, PRK00737, small nuclear ribonucleoprotei 4e-06
cd0172989 cd01729, LSm7, Like-Sm protein 7 1e-04
cd0172668 cd01726, LSm6, Like-Sm protein 6 7e-04
cd0171780 cd01717, Sm_B, Sm protein B 0.001
cd0173276 cd01732, LSm5, Like-Sm protein 5 0.003
>gnl|CDD|212475 cd01728, LSm1, Like-Sm protein 1 Back     alignment and domain information 
 Score =  113 bits (286), Expect = 1e-34
 Identities = 46/61 (75%), Positives = 55/61 (90%)

Query: 1  KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGE 60
          KILV+LRDGRKL+G+LRSFDQFAN+VLE   ERIIVG+ Y DIP GL++IRGENVVL+GE
Sbjct: 14 KILVVLRDGRKLIGILRSFDQFANLVLEDTVERIIVGNQYGDIPRGLFIIRGENVVLLGE 73

Query: 61 L 61
          +
Sbjct: 74 I 74

The eukaryotic LSm proteins (LSm1-7) assemble into a hetero-heptameric ring around the 3'-terminus of the gamma-methyl triphosphate (gamma-m-P3) capped U6 snRNA. Accumulation of uridylated RNAs in an lsm1 mutant suggests an involvement of the LSm1-7 complex in recognition of the 3' uridylation tag and recruitment of the decapping machinery. LSm1-7, together with Pat1, are also called the decapping activator. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Length = 74
>gnl|CDD|212474 cd01727, LSm8, Like-Sm protein 8 Back     alignment and domain information
>gnl|CDD|197820 smart00651, Sm, snRNP Sm proteins Back     alignment and domain information
>gnl|CDD|201787 pfam01423, LSM, LSM domain Back     alignment and domain information
>gnl|CDD|224869 COG1958, LSM1, Small nuclear ribonucleoprotein (snRNP) homolog [Transcription] Back     alignment and domain information
>gnl|CDD|212478 cd01731, archaeal_Sm1, archaeal Sm protein 1 Back     alignment and domain information
>gnl|CDD|212466 cd01719, Sm_G, Sm protein G Back     alignment and domain information
>gnl|CDD|212462 cd00600, Sm_like, Sm and related proteins Back     alignment and domain information
>gnl|CDD|179104 PRK00737, PRK00737, small nuclear ribonucleoprotein; Provisional Back     alignment and domain information
>gnl|CDD|212476 cd01729, LSm7, Like-Sm protein 7 Back     alignment and domain information
>gnl|CDD|212473 cd01726, LSm6, Like-Sm protein 6 Back     alignment and domain information
>gnl|CDD|212464 cd01717, Sm_B, Sm protein B Back     alignment and domain information
>gnl|CDD|212479 cd01732, LSm5, Like-Sm protein 5 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 107
KOG1782129 consensus Small Nuclear ribonucleoprotein splicing 99.9
cd0172874 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins 99.84
cd0172981 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins 99.84
cd0173276 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins 99.83
cd0172774 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins 99.82
cd0173082 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins 99.82
cd0171972 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins 99.81
cd0173168 archaeal_Sm1 The archaeal sm1 proteins: The Sm pro 99.79
cd0171779 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins 99.79
cd0172087 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins 99.78
PRK0073772 small nuclear ribonucleoprotein; Provisional 99.78
cd0171879 Sm_E The eukaryotic Sm and Sm-like (LSm) proteins 99.77
cd0616875 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins 99.74
cd0172667 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins 99.74
PTZ0013889 small nuclear ribonucleoprotein; Provisional 99.73
cd0172268 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins 99.73
smart0065167 Sm snRNP Sm proteins. small nuclear ribonucleoprot 99.73
PF0142367 LSM: LSM domain ; InterPro: IPR001163 This family 99.72
COG195879 LSM1 Small nuclear ribonucleoprotein (snRNP) homol 99.71
cd0060063 Sm_like The eukaryotic Sm and Sm-like (LSm) protei 99.67
cd0172170 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins 99.65
KOG178077 consensus Small Nuclear ribonucleoprotein G [RNA p 99.65
cd0172376 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins 99.64
KOG178496 consensus Small Nuclear ribonucleoprotein splicing 99.61
KOG1781108 consensus Small Nuclear ribonucleoprotein splicing 99.6
cd0172490 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins 99.59
cd0173378 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins 99.55
cd0172581 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins 99.53
KOG346091 consensus Small nuclear ribonucleoprotein (snRNP) 99.46
KOG348279 consensus Small nuclear ribonucleoprotein (snRNP) 99.4
KOG177584 consensus U6 snRNA-associated Sm-like protein [RNA 99.31
KOG3168177 consensus U1 snRNP component [Transcription] 99.3
KOG177488 consensus Small nuclear ribonucleoprotein E [RNA p 99.14
KOG178377 consensus Small nuclear ribonucleoprotein F [RNA p 99.09
KOG3293134 consensus Small nuclear ribonucleoprotein (snRNP) 98.85
KOG344896 consensus Predicted snRNP core protein [RNA proces 98.57
KOG3459114 consensus Small nuclear ribonucleoprotein (snRNP) 98.33
KOG3172119 consensus Small nuclear ribonucleoprotein Sm D3 [R 97.86
cd0173966 LSm11_C The eukaryotic Sm and Sm-like (LSm) protei 97.79
KOG3428109 consensus Small nuclear ribonucleoprotein SMD1 and 97.69
PF1443877 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1. 96.77
cd0171661 Hfq Hfq, an abundant, ubiquitous RNA-binding prote 95.08
TIGR0238361 Hfq RNA chaperone Hfq. This model represents the R 94.79
PRK0039579 hfq RNA-binding protein Hfq; Provisional 94.19
PF0223748 BPL_C: Biotin protein ligase C terminal domain; In 93.48
COG192377 Hfq Uncharacterized host factor I protein [General 93.16
PF1270196 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC 91.64
cd0173561 LSm12_N LSm12 belongs to a family of Sm-like prote 90.25
PRK14091165 RNA-binding protein Hfq; Provisional 88.12
PRK14091165 RNA-binding protein Hfq; Provisional 87.15
PF1109580 Gemin7: Gem-associated protein 7 (Gemin7); InterPr 83.25
cd0173674 LSm14_N LSm14 (also known as RAP55) belongs to a f 82.89
PF06372166 Gemin6: Gemin6 protein; InterPro: IPR009422 This f 82.26
>KOG1782 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification] Back     alignment and domain information 
Probab=99.90  E-value=4.6e-25  Score=155.04  Aligned_cols=105  Identities=62%  Similarity=1.016  Sum_probs=93.9

Q ss_pred             CEEEEEcCCcEEEEEEEEeccccceEEcceEEEEEcCceeeeeecceEEEecCcEEEEEecCccccccCCCCccccHHHH
Q 045257            1 KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMTCVSTAEI   80 (107)
Q Consensus         1 rV~V~L~dGr~i~G~L~gfD~~mNLvL~d~~E~~~~~~~~~~~~lG~vlIRG~nIv~I~~~d~~~e~~~~~~~~v~~~~i   80 (107)
                      ++.|.|+|||.+.|.|+|||||-|++|+.|+|+++-++.|..+..|.++|||+||++++.+|.++|  ..++.++|.+++
T Consensus        21 KllVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~v~~~Y~di~~glfiIRGENVvllGeid~dkE--~~~l~~i~~~e~   98 (129)
T KOG1782|consen   21 KLLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIFVGNKYCDIPRGLFIIRGENVVLLGEIDLDKE--EEPLEQISFEEA   98 (129)
T ss_pred             eEEEEEecCcchhhhhhhHHHHHHHHHHhhhhheeecceecccCceEEEEecCcEEEEecCCcchh--hccceeCCHHHH
Confidence            578999999999999999999999999999999998888889999999999999999999999998  589999999888


Q ss_pred             HHHHHHHH----HHHHhhhhhhhhcccccCC
Q 045257           81 KRAQKAEK----DATVLKGSMRKRMEFLDFD  107 (107)
Q Consensus        81 ~~~~~~e~----~~~~~~~~~~~~~~~~~~~  107 (107)
                      ...++.++    ....+|+.|++||+|+||+
T Consensus        99 ~~~~~~~q~~k~e~~~lkg~m~~rg~~~D~~  129 (129)
T KOG1782|consen   99 LNEIKREQEAKKEEERLKGTMAERGEFLDFD  129 (129)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhcccccCC
Confidence            65555444    4456777899999999996

>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences Back     alignment and domain information
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PRK00737 small nuclear ribonucleoprotein; Provisional Back     alignment and domain information
>cd01718 Sm_E The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PTZ00138 small nuclear ribonucleoprotein; Provisional Back     alignment and domain information
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>smart00651 Sm snRNP Sm proteins Back     alignment and domain information
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins Back     alignment and domain information
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription] Back     alignment and domain information
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG1780 consensus Small Nuclear ribonucleoprotein G [RNA processing and modification] Back     alignment and domain information
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG1784 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification] Back     alignment and domain information
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification] Back     alignment and domain information
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG3460 consensus Small nuclear ribonucleoprotein (snRNP) LSM3 [RNA processing and modification] Back     alignment and domain information
>KOG3482 consensus Small nuclear ribonucleoprotein (snRNP) SMF [RNA processing and modification] Back     alignment and domain information
>KOG1775 consensus U6 snRNA-associated Sm-like protein [RNA processing and modification] Back     alignment and domain information
>KOG3168 consensus U1 snRNP component [Transcription] Back     alignment and domain information
>KOG1774 consensus Small nuclear ribonucleoprotein E [RNA processing and modification] Back     alignment and domain information
>KOG1783 consensus Small nuclear ribonucleoprotein F [RNA processing and modification] Back     alignment and domain information
>KOG3293 consensus Small nuclear ribonucleoprotein (snRNP) [RNA processing and modification] Back     alignment and domain information
>KOG3448 consensus Predicted snRNP core protein [RNA processing and modification] Back     alignment and domain information
>KOG3459 consensus Small nuclear ribonucleoprotein (snRNP) Sm core protein [RNA processing and modification] Back     alignment and domain information
>KOG3172 consensus Small nuclear ribonucleoprotein Sm D3 [RNA processing and modification] Back     alignment and domain information
>cd01739 LSm11_C The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>KOG3428 consensus Small nuclear ribonucleoprotein SMD1 and related snRNPs [RNA processing and modification] Back     alignment and domain information
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1 Back     alignment and domain information
>cd01716 Hfq Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others Back     alignment and domain information
>TIGR02383 Hfq RNA chaperone Hfq Back     alignment and domain information
>PRK00395 hfq RNA-binding protein Hfq; Provisional Back     alignment and domain information
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown Back     alignment and domain information
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only] Back     alignment and domain information
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A Back     alignment and domain information
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PRK14091 RNA-binding protein Hfq; Provisional Back     alignment and domain information
>PRK14091 RNA-binding protein Hfq; Provisional Back     alignment and domain information
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins Back     alignment and domain information
>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation Back     alignment and domain information
>PF06372 Gemin6: Gemin6 protein; InterPro: IPR009422 This family consists of several mammalian Gemin6 proteins Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query107
3bw1_A96 SMX4 protein, U6 snRNA-associated SM-like protein 3e-20
4emk_C113 U6 snRNA-associated SM-like protein LSM7; SM fold, 1e-19
3s6n_G76 Small nuclear ribonucleoprotein G; SMN complex, SM 3e-19
1i8f_A81 Putative snRNP SM-like protein; beta barrel-like S 8e-19
1th7_A81 SnRNP-2, small nuclear riboprotein protein; archae 5e-16
1d3b_B91 Protein (small nuclear ribonucleoprotein associat 8e-16
4emg_A93 Probable U6 snRNA-associated SM-like protein LSM3; 1e-13
3s6n_F86 Small nuclear ribonucleoprotein F; SMN complex, SM 5e-12
2fwk_A121 U6 snRNA-associated SM-like protein LSM5; structur 7e-12
4emk_B75 U6 snRNA-associated SM-like protein LSM6; SM fold, 2e-11
1i4k_A77 Putative snRNP SM-like protein; core snRNP domain, 5e-11
1h64_175 SnRNP SM-like protein; SM fold, spliceosome, snRNP 5e-11
1mgq_A83 SM-like protein; LSM, RNA-binding, archea, RNA bin 9e-11
4emk_A94 U6 snRNA-associated SM-like protein LSM5; SM fold, 4e-10
3pgw_B 231 SM B; protein-RNA complex, U1 snRNA, SM fold, SM c 2e-08
3s6n_E92 Small nuclear ribonucleoprotein E; SMN complex, SM 1e-07
1ljo_A77 Archaeal SM-like protein AF-SM2; snRNP, core snRNP 2e-07
1b34_B118 Protein (small nuclear ribonucleoprotein SM D2); s 5e-07
1n9r_A93 SMF, small nuclear ribonucleoprotein F, snRNP-F, S 8e-07
4emh_A105 Probable U6 snRNA-associated SM-like protein LSM4; 7e-05
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae} Length = 96 Back     alignment and structure
 Score = 77.5 bits (191), Expect = 3e-20
 Identities = 20/70 (28%), Positives = 33/70 (47%), Gaps = 4/70 (5%)

Query: 1  KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGD----LYCDIPLGLYVIRGENVV 56
          ++ + LR  R L+G L++FD   N+VL  A E I   +       +    +  IRG+ V 
Sbjct: 22 RVYIKLRGARTLVGTLQAFDSHCNIVLSDAVETIYQLNNEELSESERRCEMVFIRGDTVT 81

Query: 57 LIGELDLEKE 66
          LI     + +
Sbjct: 82 LISTPSEDDD 91
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C Length = 113 Back     alignment and structure
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G Length = 76 Back     alignment and structure
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A* Length = 81 Back     alignment and structure
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1 Length = 81 Back     alignment and structure
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A Length = 91 Back     alignment and structure
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe} Length = 93 Back     alignment and structure
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F Length = 86 Back     alignment and structure
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A Length = 121 Back     alignment and structure
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B Length = 75 Back     alignment and structure
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A* Length = 77 Back     alignment and structure
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A* Length = 75 Back     alignment and structure
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A Length = 83 Back     alignment and structure
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A Length = 94 Back     alignment and structure
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A Length = 231 Back     alignment and structure
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E Length = 92 Back     alignment and structure
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1 Length = 77 Back     alignment and structure
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B Length = 118 Back     alignment and structure
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A Length = 93 Back     alignment and structure
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe} Length = 105 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query107
4emk_C113 U6 snRNA-associated SM-like protein LSM7; SM fold, 99.85
3bw1_A96 SMX4 protein, U6 snRNA-associated SM-like protein 99.84
3s6n_G76 Small nuclear ribonucleoprotein G; SMN complex, SM 99.81
1d3b_B91 Protein (small nuclear ribonucleoprotein associat 99.81
1h64_175 SnRNP SM-like protein; SM fold, spliceosome, snRNP 99.81
4emk_A94 U6 snRNA-associated SM-like protein LSM5; SM fold, 99.8
1i4k_A77 Putative snRNP SM-like protein; core snRNP domain, 99.8
1ljo_A77 Archaeal SM-like protein AF-SM2; snRNP, core snRNP 99.8
1th7_A81 SnRNP-2, small nuclear riboprotein protein; archae 99.79
4emk_B75 U6 snRNA-associated SM-like protein LSM6; SM fold, 99.78
4emg_A93 Probable U6 snRNA-associated SM-like protein LSM3; 99.78
3s6n_E92 Small nuclear ribonucleoprotein E; SMN complex, SM 99.78
3s6n_F86 Small nuclear ribonucleoprotein F; SMN complex, SM 99.78
2fwk_A121 U6 snRNA-associated SM-like protein LSM5; structur 99.78
1i8f_A81 Putative snRNP SM-like protein; beta barrel-like S 99.78
1mgq_A83 SM-like protein; LSM, RNA-binding, archea, RNA bin 99.77
1b34_B118 Protein (small nuclear ribonucleoprotein SM D2); s 99.76
1n9r_A93 SMF, small nuclear ribonucleoprotein F, snRNP-F, S 99.75
4emh_A105 Probable U6 snRNA-associated SM-like protein LSM4; 99.75
1d3b_A75 Protein (small nuclear ribonucleoprotein SM D3); s 99.74
3pgw_B 231 SM B; protein-RNA complex, U1 snRNA, SM fold, SM c 99.74
1b34_A119 Protein (small nuclear ribonucleoprotein SM D1); s 99.71
1m5q_A130 SMAP3, small nuclear ribonucleoprotein homolog, SM 99.66
2y9a_D126 Small nuclear ribonucleoprotein SM D3; splicing-RN 99.64
1y96_A86 Gemin6, SIP2, GEM-associated protein 6; SM fold, p 98.22
1u1s_A82 HFQ protein; SM-like bacterial protein, riken stru 96.07
2ylb_A74 Protein HFQ; RNA-binding protein, LSM protein, RNA 95.89
3sb2_A79 Protein HFQ; SM-like, RNA chaperone, chaperone; 2. 95.85
2y90_A104 Protein HFQ; RNA-binding protein, SM-like, RNA cha 95.48
3ahu_A78 Protein HFQ; SM-like motif, protein-RNA complex, t 95.32
2qtx_A71 Uncharacterized protein MJ1435; HFQ, SM, RNA-bindi 95.24
1kq1_A77 HFQ, HOST factor for Q beta; hexamer, RNA binding 94.54
3hfo_A70 SSR3341 protein; HFQ, SM, RNA-binding protein, sRN 92.73
3hfn_A72 ASL2047 protein; HFQ, SM, RNA-binding protein, sRN 92.5
2vxe_A88 CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA 89.77
2fb7_A95 SM-like protein, LSM-14_N (RAP55); DR.13312, BC055 88.44
1ycy_A71 Conserved hypothetical protein; structural genomic 83.73
1y96_B85 Gemin7, SIP3, GEM-associated protein 7; SM fold, p 82.82
2vc8_A84 Enhancer of mRNA-decapping protein 3; P-BODY compo 82.68
>4emk_C U6 snRNA-associated SM-like protein LSM7; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_C Back     alignment and structure
Probab=99.85  E-value=2.4e-21  Score=133.77  Aligned_cols=72  Identities=33%  Similarity=0.538  Sum_probs=54.1

Q ss_pred             CEEEEEcCCcEEEEEEEEeccccceEEcceEEEEEcCc----eeeeeecceEEEecCcEEEEEecCccccccCCCCc
Q 045257            1 KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGD----LYCDIPLGLYVIRGENVVLIGELDLEKEELPAHMT   73 (107)
Q Consensus         1 rV~V~L~dGr~i~G~L~gfD~~mNLvL~d~~E~~~~~~----~~~~~~lG~vlIRG~nIv~I~~~d~~~e~~~~~~~   73 (107)
                      +|+|+|+|||.|.|+|.|||+||||+|+||+|++..++    ....+.+|+++|||+||++|+++|.+.+. +.||.
T Consensus        35 ~V~V~L~dGr~~~G~L~~fD~~mNLVL~d~~E~~~~~~~~~~~~~~r~lG~v~IRG~nIv~I~~~d~~ee~-~~p~~  110 (113)
T 4emk_C           35 RIQATFTGGRQITGILKGFDQLMNLVLDDVEEQLRNPEDGKLTGAIRKLGLVVVRGTTLVLIAPMDGSEEI-PNPFV  110 (113)
T ss_dssp             EEEEEETTSCEEEEEEEEECTTCCEEEEEEEEEC---------CCEEEEEEEEECTTTEEEEEECC-----------
T ss_pred             cEEEEEeCCeEEEEEEEEEcCcccEEEeeEEEEEcCCCCcccccceeEccEEEECCCeEEEEEecCccccc-cCccc
Confidence            58999999999999999999999999999999876432    13568999999999999999999988873 55543
>3bw1_A SMX4 protein, U6 snRNA-associated SM-like protein LSM3; RNA-binding protein, SM protein, ring, HOMO octamer, mRNA processing; 2.50A {Saccharomyces cerevisiae} Back     alignment and structure
>3s6n_G Small nuclear ribonucleoprotein G; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_G 2y9c_G 2y9d_G 3cw1_G 3pgw_G* 2y9a_G Back     alignment and structure
>1d3b_B Protein (small nuclear ribonucleoprotein associat B); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_A 2y9b_A 2y9c_A 2y9d_A Back     alignment and structure
>1h64_1 SnRNP SM-like protein; SM fold, spliceosome, snRNP core; 1.9A {Pyrococcus abyssi} SCOP: b.38.1.1 PDB: 1m8v_A* Back     alignment and structure
>4emk_A U6 snRNA-associated SM-like protein LSM5; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_A Back     alignment and structure
>1i4k_A Putative snRNP SM-like protein; core snRNP domain, RNA binding protein; HET: CIT; 2.50A {Archaeoglobus fulgidus} SCOP: b.38.1.1 PDB: 1i5l_A* Back     alignment and structure
>1ljo_A Archaeal SM-like protein AF-SM2; snRNP, core snRNP domain, RNA binding protein, unknown F; 1.95A {Archaeoglobus fulgidus} SCOP: b.38.1.1 Back     alignment and structure
>1th7_A SnRNP-2, small nuclear riboprotein protein; archaea, SM protein, SM fold, SS-SM1, RNA binding protein; 1.68A {Sulfolobus solfataricus} SCOP: b.38.1.1 Back     alignment and structure
>4emk_B U6 snRNA-associated SM-like protein LSM6; SM fold, mRNA decay and PRE-mRNA splicing, LSM proteins, RNA protein; 2.30A {Schizosaccharomyces pombe} PDB: 3swn_B Back     alignment and structure
>4emg_A Probable U6 snRNA-associated SM-like protein LSM3; SM fold, mRNA decay, LSM proteins, RNA binding protein; 2.70A {Schizosaccharomyces pombe} Back     alignment and structure
>3s6n_E Small nuclear ribonucleoprotein E; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_E 2y9c_E 2y9d_E 3cw1_E 3pgw_E* 2y9a_E Back     alignment and structure
>3s6n_F Small nuclear ribonucleoprotein F; SMN complex, SMN-gemin2 complex, U-rich snRNA, SM fold, SM C SNRNPS, snRNP biogenesis, PRE-mRNA splicing; 2.50A {Homo sapiens} PDB: 2y9b_F 2y9c_F 2y9d_F 3cw1_F 3pgw_F* 2y9a_F Back     alignment and structure
>2fwk_A U6 snRNA-associated SM-like protein LSM5; structural genomics, structural genomics consortium, SGC, DNA binding protein; 2.14A {Cryptosporidium parvum} SCOP: b.38.1.1 PDB: 3pgg_A Back     alignment and structure
>1i8f_A Putative snRNP SM-like protein; beta barrel-like SMAP monomers form 35-stranded beta-sheet I heptamer, structural genomics; 1.75A {Pyrobaculum aerophilum} SCOP: b.38.1.1 PDB: 1lnx_A* Back     alignment and structure
>1mgq_A SM-like protein; LSM, RNA-binding, archea, RNA binding protein; 1.70A {Methanothermobacterthermautotrophicus} SCOP: b.38.1.1 PDB: 1i81_A 1loj_A* 1jbm_A 1jri_A Back     alignment and structure
>1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_C 2y9b_C 2y9c_C 2y9d_C 3cw1_C 3pgw_Y* 3s6n_B Back     alignment and structure
>1n9r_A SMF, small nuclear ribonucleoprotein F, snRNP-F, SM protein F; heptamer, translation; 2.80A {Saccharomyces cerevisiae} SCOP: b.38.1.1 PDB: 1n9s_A Back     alignment and structure
>4emh_A Probable U6 snRNA-associated SM-like protein LSM4; SM fold, mRNA decay, PRE-mRNA splicing, LSM proteins, RNA BI protein; 2.20A {Schizosaccharomyces pombe} Back     alignment and structure
>1d3b_A Protein (small nuclear ribonucleoprotein SM D3); snRNP, splicing, core snRNP domain, systemic lupus eryth SLE, RNA binding protein; HET: CIT; 2.00A {Homo sapiens} SCOP: b.38.1.1 Back     alignment and structure
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_A Back     alignment and structure
>1b34_A Protein (small nuclear ribonucleoprotein SM D1); snRNP, splicing, spliceosome, core snRNP domain, systemi erythematosus, SLE, RNA binding protein; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 2y9a_B 2y9b_B 2y9c_B 2y9d_B 3cw1_B 3pgw_X* 3s6n_A Back     alignment and structure
>1m5q_A SMAP3, small nuclear ribonucleoprotein homolog, SM-like P; OB-like fold, B-sheet toroid, 14-MER, cadmium-binding site, translation; 2.00A {Pyrobaculum aerophilum} SCOP: b.38.1.1 Back     alignment and structure
>2y9a_D Small nuclear ribonucleoprotein SM D3; splicing-RNA complex, PRE-mRNA splicing, spliceosome, snRNP biogenesis, SM site, SM fold, heteromeric heptameric ring; 3.60A {Homo sapiens} PDB: 2y9b_D 2y9c_D 2y9d_D 3pgw_Z* 3cw1_D Back     alignment and structure
>1y96_A Gemin6, SIP2, GEM-associated protein 6; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens} Back     alignment and structure
>1u1s_A HFQ protein; SM-like bacterial protein, riken structural genomics/proteomics initiative, RSGI, structural genomics, RNA binding protein; 1.60A {Pseudomonas aeruginosa} SCOP: b.38.1.2 PDB: 1u1t_A 3qui_A* 3m4g_A 3inz_A Back     alignment and structure
>2ylb_A Protein HFQ; RNA-binding protein, LSM protein, RNA chaperone; 1.15A {Salmonella enterica subsp} PDB: 2yht_A 1hk9_A 2ylc_A* 3gib_A* 3rer_A* 3qo3_A* 3res_A* Back     alignment and structure
>3sb2_A Protein HFQ; SM-like, RNA chaperone, chaperone; 2.63A {Herbaspirillum seropedicae} SCOP: b.38.1.2 Back     alignment and structure
>2y90_A Protein HFQ; RNA-binding protein, SM-like, RNA chaperone; 2.25A {Escherichia coli} PDB: 3qhs_A Back     alignment and structure
>3ahu_A Protein HFQ; SM-like motif, protein-RNA complex, translation-RNA complex; 2.20A {Bacillus subtilis} PDB: 3hsb_A Back     alignment and structure
>2qtx_A Uncharacterized protein MJ1435; HFQ, SM, RNA-binding protein, sRNA, translational regulation, RNA binding protein; 2.50A {Methanocaldococcus jannaschii} Back     alignment and structure
>1kq1_A HFQ, HOST factor for Q beta; hexamer, RNA binding protein, translational regulator, SM motif; 1.55A {Staphylococcus aureus} SCOP: b.38.1.2 PDB: 1kq2_A Back     alignment and structure
>3hfo_A SSR3341 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 1.30A {Synechocystis SP} Back     alignment and structure
>3hfn_A ASL2047 protein; HFQ, SM, RNA-binding protein, sRNA, translational regulation binding protein; 2.31A {Nostoc SP} Back     alignment and structure
>2vxe_A CG10686-PA; EDC3, CAR-1, P-bodies, decapping, mRNA decay, LSM proteins, translational repression, transcription; NMR {Drosophila melanogaster} Back     alignment and structure
>2fb7_A SM-like protein, LSM-14_N (RAP55); DR.13312, BC055387, AAH55387, stronGly BENT five-stranded antiparallel beta- sheet, structural genomics, PSI; NMR {Danio rerio} SCOP: b.38.1.5 PDB: 2vxf_A Back     alignment and structure
>1ycy_A Conserved hypothetical protein; structural genomics, southeast collaboratory for structural genomics, secsg, protein structure initiative; 2.80A {Pyrococcus furiosus} SCOP: b.38.1.4 Back     alignment and structure
>1y96_B Gemin7, SIP3, GEM-associated protein 7; SM fold, protein complex, RNA binding protein; 2.00A {Homo sapiens} Back     alignment and structure
>2vc8_A Enhancer of mRNA-decapping protein 3; P-BODY component, cytoplasm, SM-like protein, protein-binding; 1.31A {Homo sapiens} 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 107
d1d3bb_81 b.38.1.1 (B:) B core SNRNP protein {Human (Homo sa 4e-17
d2fwka192 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like pr 2e-15
d1i8fa_71 b.38.1.1 (A:) Archaeal homoheptameric Sm protein { 6e-15
d1th7a176 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm prote 8e-15
d1i4k1_72 b.38.1.1 (1:) Archaeal homoheptameric Sm protein { 1e-14
d1h641_71 b.38.1.1 (1:) Archaeal homoheptameric Sm protein { 3e-14
d1m5q1_127 b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Arch 6e-14
d1mgqa_74 b.38.1.1 (A:) Archaeal homoheptameric Sm protein { 7e-14
d1b34b_93 b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo s 1e-13
d1n9ra_68 b.38.1.1 (A:) Small nuclear ribonucleoprotein F, S 1e-12
d1ljoa_75 b.38.1.1 (A:) Archaeal homoheptameric Sm protein { 4e-11
d1d3ba_72 b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo s 1e-06
d1b34a_80 b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo s 0.003
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Length = 81 Back     information, alignment and structure

class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: B core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 67.5 bits (165), Expect = 4e-17
 Identities = 18/65 (27%), Positives = 33/65 (50%), Gaps = 7/65 (10%)

Query: 1  KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVGDLYCDIP-------LGLYVIRGE 53
          ++  +L+DGR  +G  ++FD+  N++L    E   +               LGL ++RGE
Sbjct: 10 RMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGE 69

Query: 54 NVVLI 58
          N+V +
Sbjct: 70 NLVSM 74
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein LSM5 {Cryptosporidium parvum [TaxId: 5807]} Length = 92 Back     information, alignment and structure
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 71 Back     information, alignment and structure
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein {Sulfolobus solfataricus [TaxId: 2287]} Length = 76 Back     information, alignment and structure
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]} Length = 72 Back     information, alignment and structure
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Pyrococcus abyssi [TaxId: 29292]} Length = 71 Back     information, alignment and structure
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 127 Back     information, alignment and structure
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Length = 74 Back     information, alignment and structure
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93 Back     information, alignment and structure
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 68 Back     information, alignment and structure
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]} Length = 75 Back     information, alignment and structure
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Length = 72 Back     information, alignment and structure
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80 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 ?
Query107
d1d3bb_81 B core SNRNP protein {Human (Homo sapiens) [TaxId: 99.82
d1i8fa_71 Archaeal homoheptameric Sm protein {Archaeon Pyrob 99.8
d1i4k1_72 Archaeal homoheptameric Sm protein {Archaeon Archa 99.79
d1b34b_93 D2 core SNRNP protein {Human (Homo sapiens) [TaxId 99.78
d2fwka192 U6 snRNA-associated sm-like protein LSM5 {Cryptosp 99.78
d1th7a176 Archaeal homoheptameric Sm protein {Sulfolobus sol 99.78
d1h641_71 Archaeal homoheptameric Sm protein {Archaeon Pyroc 99.77
d1n9ra_68 Small nuclear ribonucleoprotein F, Smf {Baker's ye 99.77
d1mgqa_74 Archaeal homoheptameric Sm protein {Archaeon Metha 99.76
d1ljoa_75 Archaeal homoheptameric Sm protein {Archaeon Archa 99.75
d1d3ba_72 D3 core SNRNP protein {Human (Homo sapiens) [TaxId 99.68
d1b34a_80 D1 core SNRNP protein {Human (Homo sapiens) [TaxId 99.57
d1m5q1_127 Sm-Like archaeal protein Smap3 {Archaeon Pyrobacul 99.51
d1u1sa166 Pleiotropic translational regulator Hfq {Pseudomon 95.1
d1kq1a_60 Pleiotropic translational regulator Hfq {Staphyloc 93.91
d1biaa247 Biotin repressor/biotin holoenzyme synthetase, C-t 92.22
d2vxfa180 LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio) 91.94
d1ycya166 Hypothetical protein PF1955 {Pyrococcus furiosus [ 81.23
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All beta proteins
fold: Sm-like fold
superfamily: Sm-like ribonucleoproteins
family: Sm motif of small nuclear ribonucleoproteins, SNRNP
domain: B core SNRNP protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=2.3e-20  Score=120.12  Aligned_cols=61  Identities=30%  Similarity=0.472  Sum_probs=53.1

Q ss_pred             CEEEEEcCCcEEEEEEEEeccccceEEcceEEEEEcC-------ceeeeeecceEEEecCcEEEEEec
Q 045257            1 KILVLLRDGRKLLGLLRSFDQFANVVLEGACERIIVG-------DLYCDIPLGLYVIRGENVVLIGEL   61 (107)
Q Consensus         1 rV~V~L~dGr~i~G~L~gfD~~mNLvL~d~~E~~~~~-------~~~~~~~lG~vlIRG~nIv~I~~~   61 (107)
                      ||+|+|+|||.|.|+|.|||+||||+|++|.|++...       .....|.+|+++|||++|++|+..
T Consensus        10 rv~V~l~dgR~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~IRG~~Iv~i~~~   77 (81)
T d1d3bb_          10 RMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENLVSMTVE   77 (81)
T ss_dssp             EEEEEETTCCEEEEEEEECCTTCCEEEEEEEEEEEECCSSTTSCCEEEEEEEEEEEECGGGEEEEEEE
T ss_pred             EEEEEEcCCCEEEEEEEEECCccCEEEcCEEEEEeecCccccccccceEEEeeeEEEeCCEEEEEEcc
Confidence            6899999999999999999999999999999976421       123568999999999999999854
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]} Back     information, alignment and structure
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein LSM5 {Cryptosporidium parvum [TaxId: 5807]} Back     information, alignment and structure
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein {Sulfolobus solfataricus [TaxId: 2287]} Back     information, alignment and structure
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon Pyrococcus abyssi [TaxId: 29292]} Back     information, alignment and structure
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]} Back     information, alignment and structure
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]} Back     information, alignment and structure
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Back     information, alignment and structure
>d1u1sa1 b.38.1.2 (A:6-71) Pleiotropic translational regulator Hfq {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1kq1a_ b.38.1.2 (A:) Pleiotropic translational regulator Hfq {Staphylococcus aureus [TaxId: 1280]} Back     information, alignment and structure
>d1biaa2 b.34.1.1 (A:271-317) Biotin repressor/biotin holoenzyme synthetase, C-terminal domain {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d2vxfa1 b.38.1.5 (A:6-85) LSM14 homolog A (Lsm14a) {Zebrafish (Danio rerio) [TaxId: 7955]} Back     information, alignment and structure
>d1ycya1 b.38.1.4 (A:5-70) Hypothetical protein PF1955 {Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure